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U.S. Fish and Wildlife Service

Distribution, Abundance, and Life History of Bull

Trout, and Habitat Conditions in the John Day River

Basin

FY 2016 Report

Paul M. Sankovich and Erin C. Butts


Columbia River Fish and Wildlife Conservation Office

Vancouver, WA 98683

On the cover: Headwaters of the North Fork John Day River in fall. Photograph by Paul

Sankovich (FWS).

The correct citation for this report is:

Sankovich, P. M. and E. C. Butts. 2016. Distribution, abundance, and life history of bull trout,

and habitat conditions in the John Day River Basin. U.S. Fish and Wildlife Service, Columbia

River Fish and Wildlife Conservation Office, Vancouver, WA.

Distribution, Abundance, and Life History of Bull

Trout, and Habitat Conditions in the John Day River

Basin

2016 Report

Funded by



authored by

Paul M. Sankovich and Erin C. Butts



1211 SE Cardinal Court, Suite 100

Vancouver, WA 98683

Report

2016

Disclaimers

The findings and conclusions in this report are those of the authors and do not necessarily

represent the views of the U.S. Fish and Wildlife Service.

The mention of trade names or commercial products in this report does not constitute

endorsement or recommendation for use by the federal government.

i

DISTRIBUTION, ABUNDANCE, AND LIFE HISTORY OF BULL TROUT,

AND HABITAT CONDITIONS IN THE JOHN DAY RIVER BASIN

2016 REPORT

Paul M. Sankovich



1211 SE Cardinal Court, Suite 100

Vancouver, WA 98683

Abstract

Abstract ─ The goal of the U.S. Fish and Wildlife Service’s studies in the John Day River Basin

is to provide information that can be used to develop recovery actions for bull trout Salvelinus

confluentus, listed as threatened under the Endangered Species Act. Herein, we summarize the

existing state of our knowledge about the abundance, distribution, and life history characteristics

of bull trout local populations in the North Fork John Day River, Middle Fork John Day River,

and upper John Day River core areas, and report on the results of a bull trout habitat quality

assessment that can be used to guide habitat restorations efforts.

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iii

Table of Contents

List of Tables………………………………………………………………….………………………………………………iv

List of Figures………………………………………………………………………………………………………………… v

Introduction…………………………………………………………………………………………………………………. ..1

North Fork John Day Core Area………………………………………………………………………………………. 2

Number and location of bull trout populations and patches………………………………...… 2

Life histories and migratory patterns of local bull trout populations…………………...…. 4

Abundance of bull trout in local populations……………………………………………………..….. 4

Middle Fork John Day Core Area…………………………………………………………………………………..… 6

Number and location of bull trout populations and patches………………………………...… 6

Life histories and migratory patterns of local bull trout populations……………………... 6


Upper John Day Core Area………………………………………………………………………………………………. 7

Number and location of bull trout populations and patches……………………………...…… 7

Life histories and migratory patterns of local bull trout populations…………………...…. 7


Bull Trout Habitat Quality Assessment………………………………………………………………………….… 8

Methods……………………………………………………………………………………………………………… 8

Results……………………………………………………………………………………………………………… 12

North Fork John Day River Core Area………………………………………………………. 12

Middle Fork John Day River Core Area……………………………………………………... 13

Upper John Day River Core Area……………………………………………………………… 14

Discussion, Conclusions, and Management Implications...………………………………………………. 15

Acknowledgements……………………………………………………………………………………………………… 18

Literature Cited………………………………………………………………………………………………………….… 19

Appendix A…………………………………………………………………………………………………………………...23

Appendix B………………………………………………………………………………………………………………….. 24

Appendix C…………………………………………………………………………………………………………………... 28

Appendix D………………………………………...…………………………………………………………………………37

Appendix E…………………………………………………………………………………………………………..……….45

iv

List of Tables

Table 1. Bull trout redd counts in ODFW index reaches in streams in the John Day

Basin in 2001-2015………………………………………………………………………….. 5

Table 2. Number of bull trout captured in downstream and upstream traps in the John

Day River and Call, Roberts, Deardorff, and Reynolds creeks in 1997 – 1999. In

the John Day River, up- and downstream migrant weir traps were operated in the

upper main stem (JD1) and a downstream migrant screw trap was operated below

Deardorff Creek in 1997 and 1998 and Reynolds Creek in 1999 (JD2)…………………….. 9

v

List of Figures

Figure 1. Occupied and (suspected) unoccupied bull trout patches in the North Fork John

Day, Middle Fork John Day, and upper John Day River core areas. In cases where the

lower limit of bull trout spawning and early was known and differed from the modeled

downstream boundary of a patch, the downstream boundary was adjusted to coincide

with the known lower limit. The names and areas of the patches are given in Appendix A,

Table 1. The locations of patch numbers 35-40 are shown in the insert (outside the red

box) but not in the magnified image………………………………………………………… 3

Figure 2. Reach locations in the North Fork John Day River Core Area……………………….. 9

Figure 3. Reach locations in the Middle Fork John Day River Core Area……………………... 10

Figure 4. Reach locations in the upper John Day River Core Area…………………………….. 11

1

Introduction

Bull trout Salvelinus confluentus within the coterminous United States were listed as a

threatened species under the Endangered Species Act (ESA) in 1999. The U.S. Fish and Wildlife

Service (FWS) subsequently issued a Draft Recovery Plan (FWS 2002) that included a chapter

for the John Day Recovery Unit (Chapter 9). This chapter was updated in 2004 (FWS 2004) and

served as the guide for recovery actions in the John Day River Basin until the final recovery plan

was issued in 2015 (FWS 2015). The ultimate goal of the FWS’ bull trout recovery strategy is to

“manage threats and ensure sufficient distribution and abundance to improve the status of bull

trout throughout their extant range in the coterminous United States so that protection under the

ESA is no longer necessary” (FWS 2015). Among the requirements to meet this goal is

information on the abundance, distribution, and life history characteristics of the various bull

trout local populations, as is information on the condition of habitats bull trout utilize to

complete their life cycle.

In the John Day River Basin, there is currently no system-wide abundance monitoring

program for bull trout. Oregon Department of Fish and Wildlife (ODFW) biologists count redds

in a few selected index areas, sometimes not annually. Short-term studies have been conducted

that provided information on abundance for a small portion of the basin’s bull trout populations

(Hemmingsen 2001a, 2001b, 2001c; Budy et al. 2004, 2005, 2006; Sankovich and Anglin 2014),

and for the entire basin but not individual populations (Jacobs et al. 2009). There also have been

no system-wide surveys to determine how many local bull trout population exist, in which

streams they occur, and where the spawning and early rearing areas are. It is suspected, however,

that the number and locations of existing bull trout populations are fairly well known due to a

host of sampling activities and assessments that have occurred through the years (Ratliff and

Howell 1992; Buchanan et al. 1997; ODFW 2005).

Bull trout in the John Day River Basin are known to exhibit two different life history

strategies, resident and migratory. Stream-resident bull trout complete their entire life cycle in

the tributary streams where they spawn and rear. Subadult bull trout (immature, migratory

individuals that are usually <300 mm fork length [FL] in northeastern Oregon streams) exit their

natal tributary at ages 1 - 3 (Pratt 1992; Downs 2006; Homel and Budy 2008; Howell et al.

2016). For fluvial subadults, this initial migration can occur throughout the year, but there are

generally major and minor peaks in spring and fall, respectively (e.g., Howell et al. 2016).

Fluvial subadults generally reside in a larger river for several years before returning to their natal

stream to spawn as adults at age 4 - 7 (Rieman and McIntyre 1993; Mogen and Keading 2005;

Muhlfeld and Morotz 2005). Migratory adult bull trout overwinter in larger rivers and return

upstream to spawning grounds from April through September (Pratt 1992; Swanberg 1997;

Starcevich et al 2012; Howell et al. 2016). They return downstream following the spawning

period in fall (Starcevich et al 2010, 2012; Howell et al. 2016). Although both resident and

migratory life history forms are known to be present in the John Day River Basin and documents

exist identifying (based on empirical data and professional judgment) which life history forms

occur in each local population (e.g., FWS 2002; ODFW 2005) questions still remain whether

resident or migratory forms or both occur in some local populations due to a lack of rigorous

investigation. In addition, although the migratory patterns and seasonal distribution of subadult

and adult bull trout have been described to some extent (Hemmingsen et. al. 2001a, 2001b,

2

2001c, 2001d; Sankovich and Anglin 2014), they remain largely unknown for most of the local

populations.

Habitat restoration will be a key component of bull trout recovery efforts in the John Day

River Basin (FWS 2015). A first step in those efforts will be to identify and prioritize stream

reaches requiring restoration in the three core areas (upper mainstem John Day River [JDR],

North Fork John Day River [NFJDR], and Middle Fork John Day River [MFJDR]). The

NFJDR, MFJDR, and JDR are long (180, 114, and 457 km, respectively), so it is not surprising

data have not been collected that would allow for a fine-scale habitat assessment along the full

length of those streams. There have been at least two macro-level habitat assessments, based

primarily on the professional judgment of local experts, that identified and prioritized stream

reaches requiring restoration in the John Day River Basin (Columbia-Blue Mountain Resource

Conservation and Development Area 2005; Confederated tribes of the Warm Springs

Reservation of Oregon 2014). The FWS recently developed a model to assess bull trout habitat

quality at the reach scale for two life stages (adult and subadult) and eight strategies or activities

exhibited by those life stages during each month of the year (Schaller et al. 2014). The model

relies on existing data, information obtained from topographic maps and aerial photos, and GIS

applications. Utilizing it to assess bull trout habitat quality in the NFJDR, MFJDR, and upper

JDR could further inform habitat restoration activities in the John Day River Basin.

In this document, we summarize the current state of our knowledge of where bull trout

local populations occur in the three core areas in the John Day River Basin; where bull trout

“patches” (contiguous areas containing the spawning and early rearing habitat used by local bull

trout population [FWS 2008]) are located; and the abundance, distribution, and life history

characteristics of bull trout from each of the local populations. We then report on the methods

and results of a bull trout habitat quality assessment of the NFJDR, MFJDR, and JDR upstream

from its confluence with the NFJDR and discuss the implications of that assessment relative to

the implementation of recovery actions. For details on how the bull trout patches were

identified, readers are referred to FWS (2008).

North Fork John Day River Core Area

Number and locations of bull trout populations and patches

The John Day River Recovery Unit Team identified six bull trout local populations in

the NFJDR core area: 1) upper North Fork John Day River (Crawfish, Baldy, Cunningham,

Trail, Onion, and Crane Creeks and the North Fork John Day River upstream from Granite

Creek), 2) upper Granite Creek (Bull Run, Deep, Boundary, Boulder, and upper Granite creeks),

3) Clear, Lightning, and Salmon creeks upstream from the Pete Mann ditch, 4) Clear and

Lightning creeks below the Pete Mann ditch, 5) Desolation Creek (South Fork Desolation Creek

below a barrier falls, and North Fork Desolation Creek), and 6) upper South Fork Desolation

Creek upstream from the barrier falls (FWS 2002). Using a minimum catchment area of 400 ha

and minimum elevation of 1700 m (the estimated elevation at which maximum summer stream is

<16oC) the FWS identified seventeen bull trout patches in the NFJDR core area (Figure 1;

Appendix A, Table 1). Bull trout are known to occupy eight of those patches: North Fork John

3

Figure 1. Occupied and (suspected) unoccupied bull trout patches in the North Fork John Day,

Middle Fork John Day, and upper John Day River core areas. In cases where the lower limit of

bull trout spawning and early was known and differed from the modeled downstream boundary

of a patch, the downstream boundary was adjusted to coincide with the known lower limit. The

names and areas of the patches are given in Appendix A, Table 1. The locations of patch

numbers 35-40 are shown in the insert (outside the red box) but not in the magnified image.

Day River, and South Fork Trail, Baldy, Onion, Crane, South Fork Desolation, Clear, and

Lightning creeks. These patches coincide closely to the local populations identified by the

4

recovery team. Two bull trout approximately 152 and 203 mm in length were recently captured

in Junkens Creek (T. Wiley, ODFW, personal communication), which was identified as a bull

trout patch in the patch analysis, but that stream has not been sampled rigorously to establish

whether it actually supports a local population.

Life histories and migratory patterns of local bull trout populations

Resident bull trout are present in each of the local populations in the NFJDR core area.

Recent observations of migratory adult-sized bull trout have occurred only in the NFJDR and

Baldy Creek (Sankovich and Anglin 2014), South Fork Desolation Creek (I. Tattam, Oregon

Department of Fish and Wildlife [ODFW], personal communication), and South Fork Trail

Creek (R. Al-Chokhachy, USGS, personal communication). One subadult-sized bull trout radio-

tagged in the John Day River downstream from the town of Spray migrated upstream into the

NFJDR and ultimately into Granite Creek in 2000 (Hemminsen et al. 2001d). A subadult-sized

bull trout was also observed recently in lower Clear Creek (A. Johnson, U.S. Forest Service

[USFS], personal communication).

The migrations and seasonal distribution of adult and subadult bull trout have not been

studied extensively in the NFJDR core area. In 2005-2007, the FWS radio-tagged three

migratory adult-sized bull trout (>300 mm FL) and three migratory adult-sized apparent brook

trout Salvelinus fontinalis x bull trout hybrids captured by angling in the upper 18 km of the

NFJDR or in a weir trap in the NFJDR just below the mouth of Baldy Creek (at river kilometer

[rkm] 105). All of these fish migrated upstream onto the spawning grounds in the NFJDR or

Baldy Creek in summer (Sankovich and Anglin 2014). The tracking data for all of the bull trout

and two of the apparent hybrids were limited due to mortality or tag shedding or failure. Some

of the bull trout began migrating downstream after the spawning period, and two of the apparent

hybrids also returned downstream in the fall (Sankovich and Anglin 2014). One of the apparent

hybrids, the only fish for which the FWS was able to describe an annual pattern of migration,

migrated downstream 72 km in fall, over-wintered at that site, began migrating upstream in

spring, and reached the spawning grounds in summer. Its annual pattern of migration was

typical of those of migratory adult bull trout in relatively undisturbed stream systems (e.g.,

Starcevich et al. 2010, 2012).

In fall 2009, the FWS radio-tagged four bull trout captured in a rotary screw trap at rkm

97 on the NFJDR. All but perhaps one, which was 300 mm FL, were subadult sized. These fish

continued to migrate downstream but likely remained in the NFJDR during the lives of their 96-d

tags (Sankovich and Anglin 2014). As noted above, a subadult bull trout captured and radio-

tagged on the JDR during spring 2000 migrated up the NFJDR and into Granite Creek in summer

(Hemminsen et al. 2001d); thus, there is evidence suggesting some bull trout from the NFJDR

core area overwinter in the JDR.

Abundance of bull trout in local populations

Abundance data are limited for bull trout local populations in the NFJD core area. Baldy

Creek is the only stream where redd counts have been conducted somewhat regularly in recent

5

Table 1. Bull trout redd counts in ODFW index reaches in streams in the John Day Basin in

2001-2015.

Number of redds

Year Baldy Cr Big Cr Call Cr N.F. Reynolds Cr

2001 2 23 12 5

2002 3 13 3 3

2003 3 6 6 4

2004 3 1 13 2

2005 7 2 5 0

2006 3 1 0 5

2007 0 0 - 4

2008 2 - - -

2009 - 0 0 1

2010 - - 0 0

2011 - - - -

2012 5 0 2 1

2013 2 0 1 1

2014 0 - - -

2015 - - 0 1

years. Since 2001, redd counts in an ODFW index reach in Baldy Creek have ranged from 0 to 7

in years when the counts have occurred (Table 1). In 2005-2008, the FWS conducted spawning

ground surveys in the NFJDR and more extensive surveys (in time and space) in Baldy Creek.

The survey reach in the NFJDR encompassed the entire spawning area, and the survey reach in

Baldy Creek included its lower 5 km. The extent of the spawning area in Baldy Creek has never

been fully defined but is known to extend upstream of the reach the FWS surveyed. The FWS

counted 6 to 17 redds in the NFJDR and 0 to 10 redds in Baldy Creek each year (Sankovich and

Anglin 2014). Based on the size of the redds and the substrate in which they were constructed,

the FWS estimated migratory females made 0 to 9 redds in the NFJDR and 0 to 8 redds in Baldy

Creek each year. The FWS also surveyed approximately 4 km of South Fork Desolation Creek

(from Forest Road 45 upstream to a potential passage barrier) in 2006 and 2007 and found no

redds in either year.

The weir trap the FWS operated in the NFJDR (noted above) captured three migratory

adult-sized bull trout and three apparent brook trout x bull trout hybrids in 2006 and no fish in

2007. The weir may not have been installed early enough in 2006 to capture the entire run of

migratory adults; however, it was in 2007, and the results from both years indicate migratory

adult bull trout abundance in the upper NFJDR and Baldy Creek had fallen to an exceedingly

low level.

Researchers from Utah State University conducted mark-resight surveys in the NFJDR

and Baldy Creek in 2005 and 2006. The lower and upper bounds of the 95% C.I.s for the

abundance estimates of bull trout >120 mm ranged from 274 to 2052 in the NFJDR and from

6

545 to 2509 in Baldy Creek (Budy et al 2006, 2007). The >120 mm size class could include

resident juveniles and adults, and migratory juveniles and adults.

In 2002-2004, ODFW estimated there were from 39 (SE = 13) to 145 (SE = 45) redds in

the entire NFJDR core area (S. Starcevich, ODFW, personal communication). The estimates

were obtained using a probabilistic sampling design (EMAP [Stevens 1994; Stevens and Olsen

2004]) within a sampling frame that included all wadable stream reaches containing known and

potential bull trout spawning habitat.

Overall, the available information indicates the abundance of bull trout in the NFJDR and

Baldy and South Fork Desolation creeks is low. No abundance data are available for the

remaining bull trout local populations in the NFJDR core area, and up-to-date information on

trends in abundance is largely lacking for all of the populations.

Middle Fork John Day River Core Area


The John Day River Recovery Unit Team identified three bull trout local populations in

the MFJDR core area: 1) Clear Creek, 2) Granite Boulder Creek, and 3) Big Creek (FWS 2002).

The FWS identified five bull trout patches in the MFJDR core area (Figure 1; Appendix A, Table

1). Bull trout are known to occupy three of those patches (Big, Granite Boulder, and Clear

creeks), which are located in the three streams the recovery team identified as supporting bull

trout local populations. In 2007, juvenile bull trout were observed during a culvert removal

project in Butte Creek (FWS, unpublished report), which was not identified as a patch and has

not been rigorously surveyed to determine if it supports a bull trout local population.


Resident bull trout are present in each of the local populations in the MFJDR core area.

Migratory bull trout are infrequently captured in a rotary screw at river rkm 24 on the Middle

Fork John Day River (Wilson et al. 2007; I. Tattam, ODFW, personal communication); thus,

they are present in the core area. However, it is uncertain from which of the local population(s)

they originate. Four bull trout greater than 400 mm FL were sampled in Big Creek and Granite

Boulder Creek during population surveys in those streams in 1999 (ODFW, unpublished report),

suggesting there was a fluvial component to the populations in those streams at that time. In

addition, two bull trout in the 300-450 mm size class were observed during spawning ground

surveys in Big Creek and its tributary Deadwood Creek in 2002 and 2003, and some relatively

large redds were observed in Clear Creek in 2005 (S. Starcevich, ODFW, personal

communication).

Little is known about the migratory patterns of bull trout from the MFJDR core area

beyond what can be gleaned from the sparse information collected at the rotary screw trap. The

low abundance of migratory bull trout in the MFJDR core area makes studying their migratory

patterns difficult, if not impossible.

7


The abundance of bull trout in the MFJDR core area appears to be low. In 1999, ODFW

biologists estimated there were 1950 (95% CI: 882 - 3018), 640 (122 - 1158), and 368 (8 - 728)

age 1 or older bull trout in Big, Clear, and Granite Boulder creeks, respectively (ODFW,

unpublished report). Since 2001, redd counts in Big Creek have ranged from 0 to 23 (Table 1).

In 2002-2004, ODFW estimated there were from 42 (SE = 29) to 192 (SE = 99) redds in

the entire MFJDR core area (S. Starcevich, ODFW, personal communication). The estimates

were obtained using the EMAP protocol. In 2005, ODFW conducted redd counts throughout the

entire sampling frame used for the EMAP surveys and counted 25 redds (S. Starcevich, ODFW,

personal communication).

Up-to-date information on population size and trend is lacking for all of the bull trout

local populations in the MFJDR core area. If the redd counts in Big Creek (Table 1), which were

conducted in an index reach, accurately reflected the status of the bull trout local population in

Big Creek, that population was declining to exceedingly low levels from 2001 to 2013.

Upper John Day River Core Area


The John Day River Recovery Unit Team identified two bull trout local populations in

the upper JDR core area: 1) upper John Day River, which includes Deardorff, Reynolds, Rail,

Roberts, and Call creeks, and 2) Indian Creek. The FWS identified eighteen bull trout patches in

the JDR core area (Figure 1; Appendix A, Table 1). These patches include all of the streams in

which the recovery team identified local populations, in addition to Graham, Slide, Strawberry,

Onion, Middle Fork Canyon, Pine, Norton Fork, and Dean creeks in the upper JDR (upstream

from the town of John Day), and Rock, Baldy, Bridge, and Lonesome creeks in the lower JDR

(downstream from John Day). Bull trout local populations are presently known to exist only in

the streams identified by the recovery team. A single, subadult-sized bull trout was recently

observed in Graham Creek (T. Unterwegner, ODFW retired, personal communication), but there

is no evidence of a local population existing there.


Resident bull trout are present in each of the local populations in the upper JDR core

area. Migratory bull trout are present in all but perhaps the Indian Creek local population, which

is believed to be comprised only of resident individuals because Indian Creek is seasonally de-

watered in its lower reaches.

ODFW studied the migrations of bull trout in the upper John Day River and Call,

Deardorff, Reynolds, and Roberts creeks in 1997-2000 (Hemmingsen et al. 2001a, 2001b, 2001c,

200d). Up- and downstream migrant weir traps were operated in the tributaries and in the John

Day River upstream from Call Creek. A screw trap was operated in the John Day River just

below Deardorff Creek in 1997 and 1998 and Reynolds Creek in 1999. Bull trout > 150 mm FL

8

captured in the traps were PIT-tagged. Forty-seven fish ranging from 160 to 560 mm FL were

also outfitted with radio tags. Bull trout moved past the downstream trap sites (including the

screw trap) in all months of sampling (April - October). Most downstream migrants captured

before mid-August were < 200 mm FL. Abundance of these smaller migrants peaked in spring

and early summer. Larger, migratory adult-sized fish appeared in greater numbers in September,

presumably after spawning. At the upstream traps, bull trout ranging from 180 mm to 560 mm

FL were captured from April through September, with peak abundance occurring in July. The

telemetry data indicated the lower limit of the bull trout distribution in the John Day River in

summer and winter was at rkm 421 (the town of Prairie City) and rkm 400 (the town of John

Day), respectively. However, since that study, three bull trout have been captured in a screw trap

at rkm 326, two in November 2003 and one in February 2004. (I. Tattam, ODFW, personal

communication). Two of these fish were measured and were 280 and 300 mm FL.


Abundance data, particularly collected in recent years, are limited for bull trout local

populations in the upper JDR core area. Redd counts in ODFW index reaches in Call Creek and

North Fork Reynolds Creek ranged from 0 to 13 and 0 to 5, respectively, in 2001-2015 (Table 1),

suggesting the populations in those streams are small. ODFW estimated there were from 103

(SE = 70) to 204 (SE = 89) redds in the entire upper JDR core area in 2002-2004 (S. Starcevich,

ODFW, personal communication). The estimates were obtained using the EMAP protocol. In

2005, ODFW conducted redd counts throughout the entire sampling frame used for the EMAP

surveys and counted 129 redds (S. Starcevich, ODFW, personal communication).

Although ODFW operated upstream and downstream migrant traps in the John Day River

and Call, Roberts, Deardorff, and Reynolds in 1997-1999 (Hemmingsen et al. 2001a, 2001b,

2001c), the data collected at the traps are limited in their usefulness for estimating abundance

because the traps in the tributaries and upper main stem were not fished consistently during

important parts of the year due to high flows, and the screw trap data were not adjusted for trap

efficiency. Still, those data suggest the local populations in the upper JDRS were not large in

1997-1999 (Table 2)

Information on trends in abundance is lacking for all but the Call Creek and Reynolds

Creek local populations. Based on redd counts in index areas, it appears those populations have

generally been declining since 2001 (Table 1).

Bull Trout Habitat Quality Assessment

Methods

To evaluate habitat conditions, we conducted a bull trout habitat quality assessment

following the methods described by Schaller et al. (2014). Briefly summarized, we divided the

North Fork, Middle Fork, and upper John Day (upstream from the mouth of the North Fork)

rivers into reaches containing fairly uniform habitat conditions that differed from habitat

conditions in adjacent reaches (Figures 2,3 and 4; Appendix B, Tables 1,2, and 3). We identified

9

Table 2. Number of bull trout captured in downstream and upstream traps in the John Day River

and Call, Roberts, Deardorff, and Reynolds creeks in 1997-1999. In the John Day River, up- and

downstream migrant weir traps were operated in the upper main stem (JD1) and a downstream

migrant screw trap was operated below Deardorff Creek in 1997 and 1998 and Reynolds Creek

in 1999 (JD2).

Stream

Trap Year JD1 JD2 Call Roberts Deardorff Reynolds

downstream 1997 37 158 28 10 22

1998 27 158 86 35 11

1999 11 61 94 32

36

upstream 1998 5

34 8 9

1999 5 17 7 9

the reaches based on channel modifications, land uses, stream gradient, elevation, and the

location of irrigation dams and withdrawals and major tributaries. Habitat quality was assessed

in relation to two life stages (adult and subadult) and eight strategies or activities exhibited by

those life stages: adult spawning; juvenile rearing, foraging and growth; fluvial adult upstream

migration; adult foraging and maintenance; fluvial adult downstream migration; fluvial subadult

downstream migration; fluvial subadult upstream migration; and fluvial subadult rearing,

foraging, and growth. A model was developed to calculate a monthly habitat quality score

(HQS) for each stream reach and life stage, strategy, or action. The model was based on eleven

Figure 2. Reach locations in the North Fork John Day River core area.

10

Figure 3. Reach locations in the Middle Fork John Day River core area.

habitat variables: surface flow, groundwater, water temperature, passage impediments, channel

modification, riparian zone, stream gradient, elevation, land use, geology and sinuosity. These

habitat variables were assigned a rating factor for each month and reach, and the rating factors

were adjusted by a weighting factor to reflect each variable’s relative importance. The weighting

factors were developed using an Analytical Hierarchal Process method adapted from Saaty

(2008). Each HQS was calculated as:

HQS = (HV1 x WF1) + (HV2 x WF2) +…+ (HV11 x WF11),

where HV = habitat variable and WF = weighting factor. We rated habitat quality as poor, low,

fair, good, or high if the habitat quality score was <1.8, >1.8 and <2.6, >2.6 and <3.4, >3.4 and

<4.2, or >4.2 and <5, respectively. The lowest habitat quality score possible was 1 and the

highest was 5; thus, the five ratings each spanned 0.8 scoring units.

Because stream temperature data were too sparse both temporally and spatially to characterize

stream temperatures in the NFJDR and upper JDR, we had to estimate mean monthly 7DADM

temperatures (the temperature metric utilized in our model). We did this by first identifying the

estimated August mean temperature at the approximate mid-point of each reach using the USFS’

Interactive Temperature Scenario Viewer (https://www.sciencebase.gov/ gisviewer/NorWeST/).

We then converted the August mean temperature estimates to estimates of August mean 7DAD

https://www.sciencebase.gov/%20gisviewer/NorWeST/

11

Figure 4. Reach locations in the upper John Day River core area.

maximum temperature using the equation

y = 1.39x + 0.095

where y = August mean 7DADM temperature and x = August mean temperature. This equation

was based on the correlation (r2 = 0.89) between the two temperature metrics for stream

temperatures measured at approximately 500 sites (D. Isak, USFS, personal communication).

The Interactive Temperature Scenario View provides estimates only of August mean temperate.

Thus, we assumed stream temperatures during the colder months of the year were high quality

(rating factor = 5) and estimated the monthly mean 7DADM temperatures for June, July,

September, and October based on the differences between the August mean 7DAD temperature

and the mean 7DADM temperatures for each of those months over a ten year period (2004 –

2013) in the nearby Umatilla River Basin. In that basin, the mean 7DADM temperature in

August was 1.4oC (SD = 2.0) warmer than that in June, 1.0

oC (SD = 1.3) cooler than that in July,

2.7oC (SD = 1.7) warmer than that in September, and 7.2

oC (SD = 2.2) warmer than that in

October.

12

Groundwater data were also sparse for all of the rivers, so we set the monthly rating

factor for all reaches at 3 (fair quality). In the upper JDR, surface flow data were available at

only two relevant gauging stations, which was insufficient for rating stream flow in the thirty-

eight reaches that had irrigation withdrawals or were downstream from reaches with irrigation

withdrawals (Appendix B, Table 3). For those reaches, we set the monthly rating factor for

surface flow at 3 during the irrigation season (April – October) and 5 (high quality) during the

remainder of the year. Surface flow in the reaches upstream from the section of the upper JDR

containing irrigation withdrawals was set at 5 throughout the year.

In the upper JDR, push up dams and lay flat stanchion dams are used to divert stream

flow for irrigation. The physical structure of push up dams can be altered within the irrigation

season (e.g., can transition from not blocking the entire stream channel to blocking the entire

stream channel) and can differ among years. Lay flat stanchion dams are designed to allow fish

passage, but they may not at lower flows, particularly if not maintained properly. Because of the

uncertainty in whether push up and lay flat stanchion dams were passage impediments during a

particular month, we gave each reach containing either of the two types of dams a rating factor of

3 (fair) passage conditions during the months of August (the onset of low flows) through

November (when the absence of irrigation and onset of fall rains increase stream flows and the

push up dams potentially would be submerged or breached). During the remaining months of the

year, we gave these reaches a rating factor of 5 (no passage impediments), as we did for the

remaining reaches for all months of the year.

Results

Because surface flow and stream temperature are the most heavily weighted habitat

variables in the habitat assessment model, accounting for 22% and 26% of an HQSs,

respectively, the model can provide misleading results in stream reaches where surface flows are

natural, or nearly so, yet stream temperatures are unsuitable for bull trout. This was the case for

the NFJDR and MFJDR, and to a lesser extent for the more heavily diverted upper JDR. For

example, for adult spawning in the NFJDR, the model results indicated habitat quality is fair or

better throughout the year (Appendix C, Table 1), whereas if the HQSs were based solely on

stream temperature, habitat quality for the most part would be rated as low or poor from June

through November (Appendix C, Table 2). Thus, while the model results allow for comparisons

to be made in a relative sense between habitat conditions in different stream reaches during each

month of the year, the habitat conditions may be poorer than reported herein.

North Fork John Day River Core Area

Adult spawning.--Modeled scores indicated that during the spawning period (mid-August

through October) high quality spawning habitat is present only NF1 in October (Appendix C,

Table 1). Spawning habitat was rated as good in and upstream from NF4 in August, September,

and October (excluding NF1 in October). All of the remaining reaches were rated as having fair

quality spawning habitat during the spawning period.

Juvenile rearing, foraging and growth.--Within the juvenile bull trout rearing area in the

NFJDR (NF1 through NF3) the quality of juvenile rearing, foraging, and growth habitat was

13

rated good during summer and high or good throughout the remainder of the year (Appendix C,

Table 3). Habitat quality in the river downstream from NF3 was rated as good in the summer

and high or good the remainder of the year.

Fluvial adult upstream migration.--The quality of habitat for fluvial adult upstream

migration generally was rated as high or good throughout the year upstream from NF1

(Appendix C, Table 4). Habitat quality generally was rated as high or good during the period of

fluvial adult upstream migration (spring and summer) throughout the river. Habitat quality was

rated as fair in NF1 in July and August.

Adult foraging and maintenance.--The quality of habitat for adult foraging and

maintenance was rated as high or good upstream from NF9 throughout the year (Appendix C,

Table 5). In and downstream from NF9 habitat quality was rated as high or good from

November to May and as good or fair from June through October.

Fluvial adult downstream migration.--The quality of habit for fluvial adult downstream

migration generally was rated as high or good during the period of adult downstream migration

(fall and early winter)(Appendix C, Table 6). Habitat quality was rated as good or fair

downstream from NF4 in summer.

Fluvial subadult downstream migration.--The quality of habitat for fluvial subadult

downstream migration was rated as high or good throughout the year upstream from NF10

(Appendix C, Table 7). In and downstream from NF10, habitat quality was rated as good or fair

from June through September.

Fluvial subadult upstream migration.--The quality of habitat for fluvial subadult

upstream migration was rated as high or good throughout the year upstream from NF11

(Appendix C, Table 8). In NF11, habitat quality was rated fair in June, July, and August and

high or good the remainder of the year.

Fluvial subadult rearing, foraging, and growth.--The quality of habitat for fluvial

subadult rearing, foraging, and growth was rated as high or good throughout the year upstream

from NF8 (Appendix C, Table 9). Habitat quality was rated as good or fair in and downstream

from NF8 from June through October and as high or good the remainder of the year.

Middle Fork John Day River Core Area


through October) the quality of adult spawning habitat is good or fair (Appendix D, Table 1).

Spawning habitat was generally rated as high or good from November through May and good or

fair in June and July throughout the MFJDR.

Juvenile rearing, foraging and growth.--From September through May the quality of

juvenile rearing, foraging, and growth habitat generally was rated as high or good throughout the

MFJDR (Appendix D, Table 2). In June, July, and it was generally rated as fair.

14


migration generally was rated as high or good throughout the year (Appendix D, Table 3).

Habitat quality was rated as fair in MF3, 4, 5 and 10 in August and MF10 in July.


maintenance generally was rated as high or good from June through September (Appendix D,

Table 4). It was rated as good or fair in July and August.


migration generally was rated as high or good from September through June (Appendix D, Table

5). Habitat quality was rated as good or fair in July and August.

Fluvial subadult downstream migration.--The quality of habit for fluvial subadult

downstream migration generally was rated as high or good from September through June

(Appendix D, Table 6). Habitat quality was rated as good or fair in July and August.


upstream migration was rated as high or good from September through June (Appendix D, Table

7). Habitat quality was rated good or fair in July and August.

Fluvial subadult rearing, foraging, and growth.--The quality of habitat for fluvial

subadult rearing, foraging, and growth generally was rated as high or good from September

through June (Appendix D, Table 8). Habitat quality was rated as fair in August throughout the

MFJDR and in January through March, July through September, and November in MF10.

Upper John Day River Core Area


through October) the quality of adult spawning habitat is good in JD1 and JD2 and fair or low in

the remaining reaches (Appendix E, Table 1). Spawning habitat was rated as high or good from

November through May throughout the JDR.

Juvenile rearing, foraging and growth.--From November through May the quality of the

quality of juvenile rearing, foraging, and growth habitat generally was rated as high or good

throughout the MFJDR (AppendixE, Table 2). In June, July, and it was generally rated as fair.


migration was rated as high or good from November through May (Appendix E, Table 3). In

June through October, habitat quality was rated as high or good from JD3 upstream, and

primarily as fair from JD5 downstream. In JD22 habitat for fluvial adult upstream migration was

rated as fair in July and August.


maintenance generally was rated as high or good from November through May throughout the

upper JDR (Appendix E, Table 4). It also generally was rated as high or good from JD3

upstream throughout the year. Downstream from JD3, the quality of habitat for adult foraging

15

and maintenance primarily was rated as fair in June, September, and October, fair or low in July,

and low in August.


migration generally was rated as high or good from November through May throughout the


upstream throughout the year. Downstream from JD3, habitat quality for the most part was rated

as good or fair in September, October, and June, and as fair or low in July and August.

Fluvial subadult downstream migration.--The quality of habit for subadult downstream

migration generally was rated as high or good from November through May throughout the


upstream throughout the year. Downstream from JD3, habitat quality for the most part was rated

as good or fair in September, October, and June, and as fair or low in July and August.


upstream migration generally was rated as high or good from November through May

throughout the upper JDR (Appendix E, Table 7). It was rated as high or good from JD3

upstream throughout the year. Downstream from JD3, habitat quality generally was rated as fair

or low in June through October.

Fluvial subadult rearing, foraging, and growth.-- The quality of habitat for fluvial

subadult upstream migration generally was rated as high or good from November through May

throughout the upper JDR (Appendix E, Table 7). It was rated as high or good from JD3

upstream throughout the year. Downstream from JD3, habitat quality generally was rated as fair

or low in June through October.

Discussion, Conclusions and Management Implications

For the MFJDR core area, the number and locations of bull trout patches closely

approximated what is believed to be the actual number and locations of bull trout populations (as

listed in the 2002 recovery plan—the 2015 recovery plan lists the number of local populations in

each recovery unit but does not note where those populations are located). Juvenile bull trout

have been observed in one stream in the MFJDR core area that was not identified as a patch and

has not been surveyed to determine if a bull trout population is present. With that possible

exception and two patches where bull trout occupancy is unknown, our current understanding of

the number and locations of bull trout populations in the MFJDR core area appears accurate.

In the NFJDR and upper JDR core areas, twenty-one patches were identified in which

bull trout populations are not known to exist. In any of these patches that have not been

rigorously surveyed, in addition to the three streams in the MFJDR core area where bull trout

occupancy remains unknown, managers should consider sampling in the future to solidify our

understanding of the number and locations of bull trout populations in the three core areas in the

John Day River Basin.

16

Information on the life histories and migratory patterns of bull trout from the NFJDR and

MFJDR core areas is largely lacking, and while such information is available for bull trout in the

upper JDR core area, it is somewhat dated, having been collected fifteen or more years ago

(Hemmingsen et al. 2001a, 2001b, 2001c, 2001d). Given the apparent low abundance of

migratory bull trout in the NFJDR and MFJDR core areas, studying their seasonal distribution

and movements may not be possible in the near future. Studies in those core areas as well as the

upper JDR core area could be warranted farther into the future to evaluate the effects of recovery

actions. In addition, while there are no demographic criteria for de-listing, information on

demographic characteristics such as the distribution of bull trout and connectivity between local

populations will be essential in determining whether the primary threats to bull trout have been

addressed.

Information on bull trout population abundance and trend will also be required to

determine if primary threats have been addressed. There has not been a basin-wide bull trout

monitoring program in the John Day River Basin since 2004, and that program was designed to

provide abundance estimates (redd counts) at the basin, not population, scale. The limited

abundance data that exist for the NFJDR, MFJDR, and upper JDR core areas suggest bull trout

abundance is low and possibly declining in each of those core areas. Given funding limitations,

it will not be possible to extensively monitor all of the bull trout local population in the John Day

River Basin. However, it may be possible to design and implement a scaled-down monitoring

program that provides a balance of rigor (statistical and methodological), frequency, and cost.

With respect to frequency, for example, depressed populations experiencing multiple or severe

threats might be monitored more frequently than relatively healthy populations experiencing few

or less severe threats. Other considerations would include, but not be limited to, the nature and

location of past monitoring efforts and ongoing monitoring programs or research activities

directed at other species that might provide useful information for assessing bull trout population

abundance and trend. We recommend that managers explore the possibility of designing and

implementing such a scaled-down monitoring program.

The quality of habitat for both subadult and adult bull trout and all of their strategies or

activities in the NFJDR generally was rated as high or good during the colder months of the year

(October – May) and as high, good, or fair (decreasing with increasing distance from the

headwaters) during the warmer months of the year (June – September). There are no fish

passage barriers in the NFJDR (Sankovich and Anglin 2014); thus, as has been reported

previously, the production of migratory bull trout is not limited by an inability of migratory

individuals to move freely throughout the main-stem, at least during the colder months of the

year when there are no thermal barriers to movement (Sankovich and Anglin 2014). During the

warmer months of the year, bull trout are limited to cold headwater areas in the NFJDR core area

(with the exception of any cold water refuges downstream) and this restriction to their movement

and distribution could be limiting the abundance of migratory individuals. Restoration efforts

that increase the amount of cold water habitat available to bull trout in the NFJDR during the

warmer months of the year should be given high priority.

In the MFJDR, the quality of habitat for both subadult and adult bull trout and all of their

strategies or activities generally was rated as high or good during the colder months of the year

and as good or fair during the warmer months of the year. Like the NFJDR, the MFJDR contains

17

no fish passage barriers (one possible barrier was observed in 2012 [Sankovich and Anglin

2014], but it was subsequently determined to be passable [J. Neal, ODFW retired, personal

communication]), and thermal barriers that restrict migratory bull trout to headwater reaches may

be limiting the production of migratory individuals. Also as in the NFJDR, restoration efforts

that increase the amount of cold water habitat available to bull trout during the warmer months of

the year should be given high priority.

In the upper JDR, habitat quality from JD3 upstream (e.g., upstream of the irrigation

withdrawals) generally was rated as high or good throughout the year for both subadult and adult

bull trout and all of their strategies or activities. Downstream from JD3, habitat quality generally

was rated as high or good during the colder months of the year and fair or low during the warmer

months of the year for both subadult and adult bull trout and all of their strategies or activities.

As noted in the Methods, habitat quality in reaches with push up and lay flat stanchion dams was

rated as fair in August – November due to uncertainties in passage conditions at those structures.

If some or all of those dams impeded fish passage, habitat quality could have been lower than the

model results indicated. Based on results from a radio telemetry study (Hemmingsen et al.

2001b) and on the incidental capture of bull trout in a screw trap at rkm 326 in the John Day

River (e.g., Wilson et al. 2007), it is evident some bull trout from local populations in the upper

JDR use the stream section containing the irrigation structures in the JDR. Because stream

temperatures in the irrigated section of the JDR are unsuitable for bull trout in late summer, any

impacts from passage impediments would likely occur to subadult and adult bull trout migrating

downstream in fall. To the extent possible, managers should take steps to ensure lay flat

stanchion dams are properly maintained. In addition, managers should continue to replace push

up dams with structures that provide fish passage. Because cold water habitat is limited in the

JDR in summer, as in the NFJDR and MFJDR, restoration efforts aimed at increasing the amount

of cold water habitat should be given high priority.

18

Acknowledgements

This study was funded by the U.S. Fish and Wildlife Service. Joe Skalicky and David

Hines of the FWS assisted with components of the bull trout habitat quality assessment, and

David Hines produced Figure 1 in this document.

19

Literature Cited

Buchanan, D. V., M. L. Hanson, and R. M. Hooton. 1997. Status of Oregon’s Bull Trout.

Oregon Department of Fish and Wildlife, Portland.

Budy, P., R. Al-Chokhachy, and G. P. Thiede. 2004. Bull trout population assessment and life-

history characteristics in association with habitat quality and land use: a template for

recovery planning. Annual Progress Report for 2003. USGS Utah Cooperative Fish and

Wildlife Research Unit, Utah State University, Logan, Utah.

Budy, P., R. Al-Chokhachy, K. Homel, and G. P. Thiede. 2005. Bull trout population

assessment in northeastern Oregon: a template for recovery planning. Annual Progress

Report for 2004. USGS Utah Cooperative Fish and Wildlife Research Unit, Utah State

University, Logan, Utah.

Budy, P., R. Al-Chokhachy, K. Homel, and G. P. Thiede. 2006. Bull trout population

assessment in northeastern Oregon: a template for recovery planning. Annual Progress

Report for 2005. USGS Utah Cooperative Fish and Wildlife Research Unit, Utah State

University, Logan, Utah.

Budy, P., R. Al-Chokhachy, and G. P. Thiede. 2007. Bull trout population assessment in

northeastern Oregon: a template for recovery planning. Annual Progress Report for 2006.

USGS Utah Cooperative Fish and Wildlife Research Unit, Utah State University, Logan,

Utah.

Columbia-Blue Mountain Resource Conservation and Development Area. 2005. John Day

Subbasin revised draft plan. Prepared for the Northwest Power and Conservation Council.

Portland, Oregon.

Confederated tribes of the Warm Springs Reservation of Oregon. 2014. John Day River

Watershed Restoration Strategy. John Day, Oregon.

Downs, C. C., D. Horan, E. Morgan-Harris, and R. Jakubowski. 2006. Spawning demographics

and juvenile dispersal of an adfluvial bull trout population in Trestle Creek, Idaho. North

American Journal of Fisheries Management 26:190–2000.

Hemmingsen, A. R., S. L. Gunckel, J. K. Shappart, B. L. Bellerud, D. V. Buchanan, and P. J.

Howell. 2001a. Bull trout life history, genetics, habitat needs, and limiting factors in

central and northeast Oregon, 1997 Annual Report. Bonneville Power Administration,

Portland, Oregon.

Hemmingsen, A. R., B. L. Bellerud, S. L. Gunckel, and P. J. Howell. 2001b. Bull trout life

history, genetics, habitat needs, and limiting factors in central and northeast Oregon, 1998

Annual Report. Bonneville Power Administration, Portland, Oregon.

20

Hemmingsen, A. R., S. L. Gunckel, and P. J. Howell. 2001c. Bull trout life history, genetics,

habitat needs, and limiting factors in central and northeast Oregon, 1999 Annual Report.

Bonneville Power Administration, Portland, Oregon.

Hemmingsen, A. R., S. L. Gunckel, P. M. Sankovich, and P. J. Howell. 2001d. Bull trout life

history, genetics, habitat needs, and limiting factors in central and northeast Oregon, 2000

Annual Report. Bonneville Power Administration, Portland, Oregon.

Homel, K. and P. Budy. 2008. Temporal and spatial variability in the migration patterns of

juvenile and subadult bull trout in northeastern Oregon. Transactions of the American

Fisheries Society 137:869-880.

Howell, P. J., M. E Colvin, P. M. Sankovich, D. V. Buchanan, and A. R. Hemmingen. 2016.

Life histories, demography, and distribution of a fluvial bull trout population. Transactions

of the American Fisheries Society 145:173-194.

Jacobs, S. E., W. Gaeuman, M. A. Weeber, S. L. Gunckel, and S. J. Starcevich. 2009. Utility of

a probabilistic sampling design to determine bull trout population status using redd counts in

basins of the Columbia River Plateau. North American Journal of Fisheries Management

29:1590 – 1604.

Mogen, J.T and L.R. Kaeding. 2005. Identification and characterization of migratory and

nonmigratory bull trout populations in the St. Mary River Drainage, Montana. Transactions

of the American Fisheries Society 134:841-852.

Muhlfeld, C.C. and B. Marotz. 2005. Seasonal movement and habitat use by subadult bull trout

in the upper Flathead River system, Montana. North American Journal of Fisheries

Management 25:797-810.

ODFW. 2005. 2005 Oregon native fish status report. Volume II. Assessment methods and

population results. Salem, Oregon.

Pratt, K. L. 1992. A review of bull trout life history. Pages 5-9 in P. J. Howell and D. V.

Buchanan, editors. Proceedings of the Gearhart Mountain bull trout workshop. American

Fisheries Society, Oregon Chapter. Corvallis.

Ratliff, D. R. and P. J. Howell. 1992. Pages 10-17 in P. J. Howell and D. V. Buchanan, editors.

Proceedings of the Gearhart Mountain bull trout workshop. American Fisheries Society,

Oregon Chapter. Corvallis.

Rieman, B. E., and J. D. McIntyre. 1993. Demographic and habitat requirements for

conservation of bull trout. United States Department of Agriculture, Forest Service,

Intermountain Research Station, General Technical Report INT-302, Ogden, Utah.

Saaty, T. L. 2008. Decision making with the analytical hierarchy process. International Journal

of Services Science, Vol. 1, No. 1, pp. 83-98.

21

Sankovich, P. M., and D. R. Anglin. 2014. Bull trout movement, distribution, and habitat use in

the John Day River Basin, final report. U. S. Fish and Wildlife Service, Columbia River

Fisheries Program Office, Vancouver, Washington.

Schaller, H.A., P. Budy, C. Newlon, S.L. Haeseker, J.E. Harris, M. Barrows, D. Gallion, R.C.

Koch, T. Bowerman, M. Conner, R. Al-Chokhachy, J. Skalicky and D. Anglin. 2014. Walla

Walla bull trout ten year retrospective analysis and implications for recovery planning. U.

S. Fish and Wildlife Service, Columbia River Fisheries Program Office, Vancouver,

Washington.

Starcevich, S. J., P. J. Howell, S. E. Jacobs, P. M. Sankovich. 2010. Migratory distribution of

fluvial adult bull trout in relation to land use and water use in watersheds within the Mid-

Columbia and Snake River Basins. Pages 258-266 in R.F. Carline and C. LoSapio, editors.

Conserving wild trout. Porceeding of the Wild Trout X symposium, Bozeman, MT. 370

pages. (Copy available at www.wildtroutsymposium.com)

Starcevich, S. J., P. J. Howell, S. E. Jacobs, P. M. Sankovich. 2012. Seasonal distribution of

fluvial adult bull trout in selected watersheds of the mid-Columbia and Snake River Basins.

PLoS ONE 7(5): e37257. doi: 10.1371/journal.pone.0037257

Stevens, D. L., Jr. 1994. Implementation of a national environmental monitoring program.

Journal of Environmental Management 42:1-29.

Stevens, D. L., Jr., and A. R. Olsen. 2004. Spatially balanced sampling of natural resources.

Journal of the American Statistical Association 99(465):262-278.

Swanberg, T. 1997. Movements and habitat use by fluvial bull trout in the Blackfoot River,

Montana. Transactions of the American Fisheries Society 126:735–746

.

U. S. Fish and Wildlife Service. 2002. Bull Trout (Salvelinus confluentus) Draft Recovery Plan,

Portland, Oregon.

U. S. Fish and Wildlife Service. 2004. Unpublished revised draft. Chapter 9, John Day Recovery

Unit, Oregon. 164 p. January 14, 2004.

U. S. Fish and Wildlife Service. 2008. Bull Trout Recovery: Monitoring and Evaluation

Guidance. Report prepared for the U.S. Fish and Wildlife Service by the Bull Trout

Recovery and Monitoring Technical Group (RMEG). Portland, Oregon.

U. S. Fish and Wildlife Service. 2015. Recovery plan for the coterminous United States

population of bull trout (Salvelinus confluentus). Portland, Oregon.

22

Wilson, W., T. Schultz, J. Ruzycki, R. Carmichael, J. Hair, J. Schricker. 2007. Escapement and

productivity of Spring Chinook and Summer Steelhead in the John Day Basin, 2004-2005

Technical Report. Bonneville Power Administration. Portland, Oregon.

23

Appendix A, Table 1. Name, identification number, and area of bull trout patches in the John

Day River Basin.

Patch Patch

Patch name ID number area (ha)

Big Creek 1 15674.1

North Trail Creek 2 1537.7

South Trail Creek 3 2243.1

North Fork John Day River 4 4349.5

Baldy Creek (NFJD) 5 2569.2

Onion Creek (NFJD) 6 593.8

Crane Creek 7 904.9

Boulder Creek 8 474.5

East Fork Boundary Creek 9 403.4

Junkens Creek 10 662.1

Indian Creek 11 556.2

Big Creek 12 2123.6

South Fork Desolation Creek 13 2268.2

North Fork Desolation Creek 14 1161.3

Lake Creek 15 1419.2

Lost Creek 16 965.3

Wolesy Creek 17 559.5

Clear Creek (NFJD) 18 1661.3

Lightning Creek 19 1012.0

Granite Boulder Cr 20 1728.8

Badger Creek 21 589.3

Clear Creek (MFJD) 22 4336.7

Reynolds Creek 23 6266.7

Deardorff Creek 24 4779.8

Rail Creek 25 1929.0

Upper John Day River 26 4513.7

Roberts Creek 27 2224.1

Graham Creek 28 429.6

Slide Creek 29 825.4

Strawberry Creek 30 1091.6

Onion Creek (upper JD) 31 498.3

Indian Creek (upper JD) 32 2714.2

Middle Fork Canyon Creek 33 576.9

Pine Creek 34 642.2

Norton Fork 35 444.7

Dean Creek 36 403.7

Rock Creek 37 539.8

Baldy Creek (upper JD) 38 630.2

Bridge Creek 39 787.5

Lonesome Creek 40 527.7

24

Appendix B, Table 1. Up- and downstream boundaries, length, and coordinates of the downstream boundary of stream reaches in the

North Fork John Day River where bull trout habitat quality was assessed.

Downstream

boundary

Boundaries Length coordinates (UTM)

Reach Upstream Downstream (km) Easting Northing

NF1 Headwaters Cunningham Creek 6.0 399957 4973908

NF2 Cunningham Creek Baldy Creek 4.9 395982 4973784

NF3 Baldy Creek Trail Creek 8.6 388943 4974541

NF4 Trail Creek Granite Creek 21.6 376565 4969229

NF5 Granite Creek Big Creek 17.4 367264 4979904

NF6 Big Creek Desolation Creek 25.9 347316 4984544

NF7 Desolation Creek Camas Creek 5.6 342721 4986004

NF8 Camas Creek Middle Fork John Day River 39.8 318310 4976182

NF9 Middle Fork John Day River east end of Monument 24.3 309875 4966250

NF10 east end of Monument Cottonwood Creek 2.0 308612 4965222

NF11 Cottonwood Creek Mouth 25.4 290982 4959149

25

Appendix B, Table 2. Up- and downstream boundaries, length, and coordinates of the downstream boundary of reaches in the Middle

Fork John Day River where bull trout habitat quality was assessed.

Downstream

boundary



MF1 Headwaters downstream end of Phipps Meadows 2.6 385306 4937870

MF2 downstream end of Phipps Meadow Highway 7 4.9 382314 4940016

MF3 Highway 7 Clear Creek 2.9 380404 4938909

MF4 Clear Creek Vinegar Creek 2.7 378134 4939804

MF5 Vinegar Creek Deerhorn Creek 5.9 374496 4942458

MF6 Deerhorn Creek Granite Boulder Creek 7.8 368250 4944625

MF7 Granite Boulder Creek Big Boulder Creek 6.7 363920 4947298

MF8 Big Boulder Creek Camp Creek 8.3 357577 4950469

MF9 Camp Creek upstream end of mine tailings 3.2 356040 4952263

MF10 upstream end of mine tailings downstream end of mine tailings 3.6 354480 4954738

MF11 downstream end of mine tailings Big Creek 7.8 351618 4958631

MF12 Big Creek Long Creek 53.9 324374 4972890

MF13 Long Creek Mouth 9.2 323468 4976195

26

Appendix B, Table 3. Up- and downstream boundaries, length, and coordinates of the downstream boundary of reaches in the John

Day River where bull trout habitat quality was assessed.

Downstream

boundary



JD1 Headwaters Call Creek 9.3 375752 4908592

JD2 Call Creek Blue Mountain Hot Springs 4.6 374431 4912489

JD3 Blue Mountain Hot Springs Jacobs Old Settlers Ditch 9.9 371408 4920207

JD4 Jacobs Old Settlers Ditch unidentified ditch 1.8 370530 4921544

JD5 unidentified ditch unidentified ditch 0.9 369985 4922106

JD6 unidentified ditch Mill Ditch 2.9 367969 4923409

JD7 Mill Ditch Ricco John Day River Ditch 9.6 359928 4922555

JD8 Ricco John Day River Ditch Indian Creek 6.0 354540 4922100

JD9 Indian Creek unidentified ditch 0.3 354259 4922118

JD10 unidentified ditch Trowbridge Ditch 9.0 346872 4919912

JD11 Trowbridge Ditch Canyon Creek 3.1 344049 4920648

JD12 Canyon Creek Laycock Long Ditch 3.4 340857 4921059

JD13 Laycock Long Ditch Enterprise Ditch 1.1 339509 4920763

JD14 Enterprise Ditch unidentified ditch 3.4 336402 4920191

JD15 unidentified ditch Loop Ranch pump station 0.8 335682 4920095

JD16 Loop Ranch pump station Fry-Ingle Ditch 0.3 335356 4920024

JD17 Fry-Ingle Ditch unidentified ditch 4.3 331436 4919695

JD18 unidentified ditch Blue Mountain Ditch 1.0 330538 4919694

JD19 Blue Mountain Ditch Mason and Damon Ditch 2.4 328472 4920572

JD20 Mason and Damon Ditch unidentified ditch 3.4 326002 4920789

JD21 unidentified ditch unnamed pump station 1.8 324605 4920525

JD22 unnamed pump station unidentified ditch 0.8 323916 4920629

27

JD23 unidentified ditch Boyce Ditch 2.9 321499 4921013

JD24 Boyce Ditch Chandler Ditch 3.0 319234 4921677

JD25 Chandler Ditch Moore Ditch 2.9 317600 4922889

JD26 Moore Ditch Cummings River Ditch 2.5 315675 4922855

JD27 Cummings River Ditch Dovenberg pump station 3.3 312966 4923155

JD28 Dovenberg pump station Long Box Ditch 7.5 306997 4925259

JD29 Long Box Ditch Auxier pump station 5.2 303478 4926235

JD30 Auxier pump station unnamed pump station 3.7 301037 4926598

JD31 unnamed pump station Throop Snyder Ditch 1.2 299930 4926547

JD32 Throop Snyder Ditch South Fork John Day River 1.9 298601 4927494

JD33 South Fork John Day River Clausen pump station 2.1 296927 4928470

JD34 Clausen pump station Murray Ditch 0.7 296823 4929110

JD35 Murray Ditch Kennedy Ditch 1.8 295233 4929619

JD36 Kennedy Ditch unnamed pump station 2.8 293193 4930997

JD37 unnamed pump station south end of Picture Gorge 2.3 291519 4932040

JD38 south end of Picture Gorge north end of Picture Gorge 2.2 290744 4933922

JD39 north end of Picture Gorge south end of Longview Ranch 14.7 290383 4945645

JD40 south end of Longview Ranch unnamed pump station 12.2 290337 4955772

JD41 unnamed pump station North Fork John Day River 4.8 290989 4959135

28

Appendix C, Table 1. Monthly habitat quality scores and indices for bull trout spawning habit in eleven reaches in the North Fork

John Day River.

Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec HQ Index

NF1 4.17 4.17 4.17 4.17 4.17 3.70 3.70 3.70 3.70 4.48 4.22 4.17

NF2 4.34 4.34 4.34 4.34 4.34 3.87 3.87 3.87 3.87 4.13 4.39 4.34 High 5.00

NF3 4.39 4.39 4.39 4.39 4.39 3.92 3.92 3.92 3.92 4.18 4.44 4.39

NF4 4.24 4.24 4.24 4.24 4.24 3.51 3.51 3.51 3.51 3.77 4.29 4.24

NF5 4.21 4.21 4.21 4.21 4.21 3.23 3.23 3.23 3.23 3.23 4.01 4.21 Good 4.00

NF6 4.21 4.21 4.21 4.21 4.21 3.23 3.23 3.23 3.23 3.23 4.01 4.21

NF7 4.13 4.13 4.13 4.13 4.13 3.15 3.15 3.15 3.15 3.15 3.93 4.13

NF8 4.20 4.20 4.20 4.20 4.20 3.22 3.22 3.22 3.22 3.22 4.00 4.20 Fair 3.00

NF9 4.12 4.12 4.12 4.12 4.12 3.15 3.15 3.15 3.15 3.15 3.93 4.12

NF10 3.94 3.94 3.94 3.94 3.94 2.96 2.96 2.96 2.96 2.96 3.74 3.94

NF11 4.02 4.02 4.02 4.02 4.02 3.04 2.83 2.83 2.93 3.04 3.82 4.02 Low 2.00

Poor 1.00

29

Appendix C, Table 2. Monthly habitat scores and indices for bull trout spawning habit in eleven reaches in the North Fork John Day

River.


NF1 4.00 4.00 4.00 4.00 4.00 2.00 2.00 2.00 2.00 5.00 4.00 4.00

NF2 4.00 4.00 4.00 4.00 4.00 2.00 2.00 2.00 2.00 3.00 4.00 4.00 High 5.00

NF3 4.00 4.00 4.00 4.00 4.00 2.00 2.00 2.00 2.00 3.00 4.00 4.00

NF4 4.00 4.00 4.00 4.00 4.00 1.00 1.00 1.00 1.00 2.00 4.00 4.00

NF5 4.00 4.00 4.00 4.00 4.00 1.00 1.00 1.00 1.00 1.00 4.00 4.00 Good 4.00

NF6 4.00 4.00 4.00 4.00 4.00 1.00 1.00 1.00 1.00 1.00 4.00 4.00

NF7 4.00 4.00 4.00 4.00 4.00 1.00 1.00 1.00 1.00 1.00 4.00 4.00

NF8 4.00 4.00 4.00 4.00 4.00 1.00 1.00 1.00 1.00 1.00 4.00 4.00 Fair 3.00

NF9 4.00 4.00 4.00 4.00 4.00 1.00 1.00 1.00 1.00 1.00 4.00 4.00

NF10 4.00 4.00 4.00 4.00 4.00 1.00 1.00 1.00 1.00 1.00 4.00 4.00

NF11 4.00 4.00 4.00 4.00 4.00 1.00 1.00 1.00 1.00 1.00 4.00 4.00 Low 2.00

Poor 1.00

30

Appendix C, Table 3. Monthly habitat quality scores and indices for juvenile rearing, foraging and growth habitat in eleven reaches in

the North Fork John Day River.


NF1 4.15 4.15 4.15 4.15 4.15 4.48 4.48 4.19 4.48 3.90 4.19 4.15

NF2 4.37 4.37 4.37 4.37 4.37 4.41 4.41 4.41 4.70 4.41 4.41 4.37 High 5.00

NF3 4.42 4.42 4.42 4.42 4.42 4.46 4.46 4.75 4.46 4.46 4.46 4.42

NF4 4.25 4.25 4.25 4.25 4.25 3.71 3.71 4.00 3.71 4.29 4.29 4.25

NF5 4.19 4.19 4.19 4.19 4.19 3.45 3.16 3.45 3.16 3.74 4.03 4.19 Good 4.00

NF6 4.19 4.19 4.19 4.19 4.19 3.16 3.16 3.16 3.16 3.74 4.03 4.19

NF7 4.05 4.05 4.05 4.05 4.05 3.02 3.02 3.02 3.02 3.31 3.89 4.05

NF8 4.20 4.20 4.20 4.20 4.20 3.17 3.17 3.17 3.17 3.46 4.04 4.20 Fair 3.00

NF9 4.07 4.07 4.07 4.07 4.07 3.04 3.04 3.04 3.04 3.33 3.91 4.07

NF10 3.80 3.80 3.80 3.80 3.80 2.77 2.77 2.77 2.77 2.77 3.64 3.80

NF11 3.93 3.93 3.93 3.93 3.93 2.91 2.81 2.81 2.86 2.91 3.77 3.93 Low 2.00

Poor 1.00

31

Appendix C, Table 4. Monthly habitat quality scores and indices for fluvial adult upstream migration habitat in eleven reaches in the

North Fork John Day River.


NF1 4.43 4.43 4.43 4.43 4.43 4.47 4.47 4.47 4.12 4.12 4.47 4.43

NF2 4.55 4.55 4.55 4.55 4.55 4.60 4.60 4.77 4.60 4.24 4.60 4.55 High 5.00

NF3 4.60 4.60 4.60 4.60 4.60 4.82 4.82 4.64 4.64 4.29 4.64 4.60

NF4 4.56 4.56 4.56 4.56 4.56 4.42 4.42 4.42 4.25 4.60 4.60 4.56

NF5 4.54 4.54 4.54 4.54 4.54 4.02 4.02 4.02 4.02 4.20 4.37 4.54 Good 4.00

NF6 4.54 4.54 4.54 4.54 4.54 4.02 4.02 4.02 4.02 4.20 4.37 4.54

NF7 4.50 4.50 4.50 4.50 4.50 3.98 3.98 3.98 3.98 4.16 4.33 4.50

NF8 4.54 4.54 4.54 4.54 4.54 3.85 3.85 4.02 3.85 4.02 4.38 4.54 Fair 3.00

NF9 4.50 4.50 4.50 4.50 4.50 3.80 3.80 3.80 3.80 3.98 4.34 4.50

NF10 4.35 4.35 4.35 4.35 4.35 3.65 3.65 3.65 3.65 3.83 4.18 4.35

NF11 4.39 4.39 4.39 4.39 4.39 3.69 3.31 3.31 3.50 3.87 4.22 4.39 Low 2.00

Poor 1.00

32

Appendix C, Table 5. Monthly habitat quality scores and indices for adult foraging and maintenance habitat in eleven reaches in the



NF1 4.21 4.21 4.21 4.21 4.21 4.23 4.23 4.23 4.23 3.98 4.23 4.21

NF2 4.38 4.38 4.38 4.38 4.38 4.40 4.40 4.66 4.40 4.40 4.40 4.38 High 5.00

NF3 4.42 4.42 4.42 4.42 4.42 4.70 4.70 4.45 4.45 4.45 4.45 4.42

NF4 4.35 4.35 4.35 4.35 4.35 4.12 4.12 4.37 3.87 4.37 4.37 4.35

NF5 4.30 4.30 4.30 4.30 4.30 3.68 3.68 3.68 3.68 4.19 4.19 4.30 Good 4.00

NF6 4.30 4.30 4.30 4.30 4.30 3.68 3.68 3.68 3.68 4.19 4.19 4.30

NF7 4.18 4.18 4.18 4.18 4.18 3.57 3.57 3.57 3.57 3.82 4.07 4.18

NF8 4.32 4.32 4.32 4.32 4.32 3.45 3.45 3.70 3.45 3.70 4.21 4.32 Fair 3.00

NF9 4.20 4.20 4.20 4.20 4.20 3.33 3.33 3.33 3.33 3.59 4.09 4.20

NF10 3.93 3.93 3.93 3.93 3.93 3.06 3.06 3.06 3.06 3.32 3.82 3.93

NF11 4.05 4.05 4.05 4.05 4.05 3.18 3.02 3.02 3.10 3.43 3.94 4.05 Low 2.00

Poor 1.00

33

Appendix C, Table 6. Monthly habitat quality scores and indices for fluvial adult downstream migration habitat in eleven reaches in



NF1 4.37 4.37 4.37 4.37 4.37 4.40 4.40 4.40 4.40 4.40 4.40 4.37

NF2 4.49 4.49 4.49 4.49 4.49 4.52 4.52 4.52 4.52 4.72 4.52 4.49 High 5.00

NF3 4.51 4.51 4.51 4.51 4.51 4.55 4.55 4.55 4.55 4.75 4.55 4.51

NF4 4.50 4.50 4.50 4.50 4.50 4.33 4.33 4.33 4.13 4.53 4.53 4.50

NF5 4.46 4.46 4.46 4.46 4.46 3.92 3.92 3.92 3.92 4.12 4.32 4.46 Good 4.00

NF6 4.46 4.46 4.46 4.46 4.46 3.92 3.92 3.92 3.92 4.12 4.32 4.46

NF7 4.40 4.40 4.40 4.40 4.40 3.86 3.86 3.86 3.86 4.06 4.26 4.40

NF8 4.45 4.45 4.45 4.45 4.45 3.71 3.71 3.91 3.71 3.91 4.31 4.45 Fair 3.00

NF9 4.39 4.39 4.39 4.39 4.39 3.65 3.65 3.65 3.65 3.85 4.25 4.39

NF10 4.20 4.20 4.20 4.20 4.20 3.47 3.47 3.47 3.47 3.67 4.07 4.20

NF11 4.26 4.26 4.26 4.26 4.26 3.52 3.36 3.36 3.52 3.72 4.12 4.26 Low 2.00

Poor 1.00

34

Appendix C, Table 7. Monthly habitat quality scores and indices subadult downstream migration habitat in eleven reaches in the



NF1 4.35 4.35 4.35 4.35 4.35 4.38 4.38 4.38 4.38 4.38 4.38 4.35

NF2 4.47 4.47 4.47 4.47 4.47 4.50 4.50 4.50 4.50 4.74 4.50 4.47 High 5.00

NF3 4.50 4.50 4.50 4.50 4.50 4.53 4.53 4.53 4.53 4.77 4.53 4.50

NF4 4.48 4.48 4.48 4.48 4.48 4.27 4.27 4.27 4.03 4.51 4.51 4.48

NF5 4.45 4.45 4.45 4.45 4.45 3.84 3.84 3.84 3.84 4.08 4.32 4.45 Good 4.00

NF6 4.45 4.45 4.45 4.45 4.45 3.84 3.84 3.84 3.84 4.08 4.32 4.45

NF7 4.39 4.39 4.39 4.39 4.39 3.78 3.78 3.78 3.78 4.02 4.26 4.39

NF8 4.45 4.45 4.45 4.45 4.45 3.60 3.60 3.84 3.60 3.84 4.31 4.45 Fair 3.00

NF9 4.39 4.39 4.39 4.39 4.39 3.54 3.54 3.54 3.54 3.78 4.25 4.39

NF10 4.21 4.21 4.21 4.21 4.21 3.36 3.36 3.36 3.36 3.60 4.08 4.21

NF11 4.27 4.27 4.27 4.27 4.27 3.42 3.25 3.25 3.42 3.66 4.14 4.27 Low 2.00

Poor 1.00

35

Appendix C, Table 8. Monthly habitat quality scores and indices for fluvial subadult upstream migration habitat in eleven reaches in



NF1 4.43 4.43 4.43 4.43 4.43 4.67 4.67 4.67 4.67 4.67 4.47 4.43

NF2 4.55 4.55 4.55 4.55 4.55 4.79 4.79 4.79 4.79 4.79 4.59 4.55 High 5.00

NF3 4.59 4.59 4.59 4.59 4.59 4.83 4.83 4.83 4.83 4.83 4.63 4.59

NF4 4.51 4.51 4.51 4.51 4.51 4.35 4.35 4.55 4.15 4.75 4.55 4.51

NF5 4.50 4.50 4.50 4.50 4.50 3.94 3.94 3.94 3.94 4.34 4.34 4.50 Good 4.00

NF6 4.50 4.50 4.50 4.50 4.50 3.94 3.94 3.94 3.94 4.34 4.34 4.50

NF7 4.45 4.45 4.45 4.45 4.45 3.90 3.90 3.90 3.90 4.10 4.29 4.45

NF8 4.45 4.45 4.45 4.45 4.45 3.90 3.90 3.90 3.90 4.10 4.29 4.45 Fair 3.00

NF9 4.45 4.45 4.45 4.45 4.45 3.70 3.70 3.70 3.70 3.90 4.29 4.45

NF10 4.28 4.28 4.28 4.28 4.28 3.53 3.53 3.53 3.53 3.73 4.13 4.28

NF11 4.33 4.33 4.33 4.33 4.33 3.24 3.24 3.24 3.40 3.77 4.17 4.33 Low 2.00

Poor 1.00

36

Appendix C, Table 9. Monthly habitat quality scores and indices for fluvial subadult rearing, foraging, and growth habitat in eleven

reaches in the North Fork John Day River.


NF1 4.19 4.19 4.19 4.19 4.19 4.22 4.22 4.22 4.22 3.69 4.22 4.19

NF2 4.34 4.34 4.34 4.34 4.34 4.37 4.37 4.64 4.37 4.11 4.37 4.34 High 5.00

NF3 4.38 4.38 4.38 4.38 4.38 4.67 4.67 4.40 4.40 4.14 4.40 4.38

NF4 4.32 4.32 4.32 4.32 4.32 4.08 4.08 4.34 3.81 4.34 4.34 4.32

NF5 4.27 4.27 4.27 4.27 4.27 3.62 3.62 3.62 3.62 4.15 4.15 4.27 Good 4.00

NF6 4.27 4.27 4.27 4.27 4.27 3.62 3.62 3.62 3.62 4.15 4.15 4.27

NF7 4.17 4.17 4.17 4.17 4.17 3.52 3.52 3.52 3.52 3.79 4.06 4.17

NF8 4.27 4.27 4.27 4.27 4.27 3.36 3.36 3.63 3.36 3.63 4.16 4.27 Fair 3.00

NF9 4.17 4.17 4.17 4.17 4.17 3.26 3.26 3.26 3.26 3.53 4.06 4.17

NF10 3.94 3.94 3.94 3.94 3.94 3.03 3.03 3.03 3.03 3.30 3.83 3.94

NF11 4.04 4.04 4.04 4.04 4.04 3.13 2.98 2.98 3.06 3.39 3.92 4.04 Low 2.00

Poor 1.00

37

Appendix D, Table 1. Monthly habitat quality scores and indices for bull trout spawning habit in thirteen reaches in the Middle Fork

John Day River.


MF1 4.52 4.26 4.52 4.00 3.74 3.28 3.28 2.85 3.28 3.54 3.54 4.26

MF2 4.57 4.31 4.57 4.05 3.79 3.58 3.36 3.15 3.36 3.84 4.10 4.31 High 5.00

MF3 4.43 4.17 4.43 3.91 3.39 3.19 2.98 2.76 2.98 3.45 3.71 4.17

MF4 4.13 4.13 4.39 4.13 3.61 3.15 2.94 2.72 2.94 3.41 4.19 4.13

MF5 4.10 4.10 4.36 4.10 3.58 3.12 2.91 2.69 3.17 3.64 3.90 4.10 Good 4.00

MF6 4.21 4.21 4.21 3.95 3.69 3.23 3.02 2.80 3.02 3.75 4.27 4.21

MF7 4.21 4.21 4.21 4.47 3.69 3.49 3.02 2.80 3.02 3.49 3.75 4.21

MF8 4.17 4.17 4.17 3.91 3.65 3.20 2.98 2.76 2.98 3.71 3.97 4.17 Fair 3.00

MF9 4.16 4.16 4.42 3.90 3.64 3.69 3.22 3.00 3.22 3.69 4.21 4.16

MF10 4.02 4.02 4.02 3.76 3.50 3.04 2.82 2.61 2.82 3.30 3.82 4.11

MF11 4.21 4.21 4.21 3.95 3.69 3.23 3.02 2.80 3.02 3.49 4.01 4.21 Low 2.00

MF12 4.21 4.21 4.21 3.95 3.69 3.23 3.02 2.80 3.02 3.75 4.27 4.21

MF13 4.12 4.12 4.12 3.60 3.60 3.15 2.93 2.71 2.93 3.41 3.93 4.12

Poor 1.00

38

Appendix D, Table 2. Monthly habitat quality scores and indices for juvenile rearing, foraging and growth habitat in thirteen reaches

in the Middle Fork John Day River.


MF1 3.88 3.88 3.88 4.17 4.17 3.14 3.43 3.00 3.43 4.01 4.01 3.59

MF2 4.00 4.00 4.00 4.29 4.29 3.75 3.24 3.32 3.82 4.62 4.33 3.71 High 5.00

MF3 3.78 3.78 3.78 4.07 3.78 3.33 2.83 2.90 3.41 4.20 3.91 3.49

MF4 3.44 3.73 3.73 3.44 4.01 3.28 2.77 2.85 3.35 4.14 3.85 3.44

MF5 3.45 3.74 3.74 3.45 4.03 3.29 2.79 2.86 3.66 3.87 3.58 3.45 Good 4.00

MF6 3.63 3.63 3.63 4.21 4.50 3.76 2.96 3.04 3.54 4.05 3.76 3.63

MF7 3.63 3.63 3.63 3.92 4.50 4.05 3.25 3.04 3.54 4.34 4.05 3.63

MF8 3.57 3.57 3.57 4.15 4.15 3.70 2.91 2.69 3.49 3.99 3.70 3.57 Fair 3.00

MF9 3.59 3.59 3.88 4.17 4.46 4.21 3.12 2.91 3.70 4.50 3.92 3.59

MF10 3.38 3.67 3.67 3.96 4.24 3.51 2.71 2.50 3.00 4.08 3.51 3.49

MF11 3.63 3.92 3.92 4.21 4.21 3.76 2.96 2.75 3.25 4.34 3.76 3.51 Low 2.00

MF12 3.63 3.63 3.63 4.21 4.50 3.76 2.96 2.75 3.54 4.05 3.76 3.63

MF13 3.49 3.49 3.49 4.07 4.07 3.62 2.82 2.61 3.11 4.20 3.62 3.49

Poor 1.00

39

Appendix D, Table 3. Monthly habitat quality scores and indices for fluvial adult upstream migration habitat in thirteen reaches in the

Middle Fork John Day River.


MF1 4.15 3.97 4.15 4.15 4.68 3.98 3.98 3.43 4.16 4.51 4.34 3.97

MF2 4.20 4.03 4.20 4.20 4.73 4.25 3.97 3.69 4.15 4.60 4.25 4.03 High 5.00

MF3 4.09 3.92 4.09 4.09 4.27 3.93 3.65 3.37 3.83 4.28 3.93 3.92

MF4 3.89 3.89 4.06 3.89 4.42 4.07 3.62 3.34 3.80 4.25 3.90 3.89

MF5 3.92 3.92 4.09 3.92 4.45 4.10 3.65 3.37 4.18 3.93 3.75 3.92 Good 4.00

MF6 4.00 4.00 4.00 4.18 4.53 4.19 3.73 3.46 3.91 4.01 4.01 4.00

MF7 4.00 4.00 4.00 4.18 4.18 4.54 3.73 3.46 3.91 4.36 4.01 4.00

MF8 3.97 3.97 3.97 4.15 4.50 4.16 3.70 3.43 3.88 3.98 3.80 3.97 Fair 3.00

MF9 3.96 3.96 4.13 4.13 4.49 4.71 3.90 3.62 4.08 4.18 4.00 3.96

MF10 3.55 3.55 3.55 3.72 4.08 3.73 3.28 3.00 3.46 3.56 3.38 3.88

MF11 4.00 4.00 4.00 4.18 4.53 4.19 3.73 3.46 3.91 4.36 3.83 3.66 Low 2.00

MF12 4.00 4.00 4.00 4.18 4.53 4.19 3.73 3.46 3.91 4.01 4.01 4.00

MF13 3.97 3.97 3.97 4.50 4.50 4.16 3.71 3.43 3.88 3.98 3.80 3.97

Poor 1.00

40

Appendix D, Table 4. Monthly habitat quality scores and indices for adult foraging and maintenance habitat in thirteen reaches in the

Middle Fork John Day River.


MF1 3.91 3.91 3.91 4.17 4.42 3.55 3.55 3.11 3.80 4.31 4.05 3.66

MF2 4.06 4.06 4.06 4.31 4.56 3.83 3.61 3.39 4.12 4.34 4.34 3.80 High 5.00

MF3 3.84 3.84 3.84 4.09 4.09 3.47 3.25 3.03 3.76 3.98 3.98 3.58

MF4 3.53 3.79 3.79 3.53 4.04 3.67 3.20 2.98 3.71 3.93 3.93 3.53

MF5 3.62 3.87 3.87 3.62 4.12 3.76 3.29 3.06 4.05 4.01 3.76 3.62 Good 4.00

MF6 3.79 3.79 3.79 4.29 4.29 4.18 3.45 3.23 3.96 4.18 3.93 3.79

MF7 3.79 3.79 3.79 4.04 4.29 4.43 3.45 3.23 3.96 4.18 4.18 3.79

MF8 3.74 3.74 3.74 4.24 4.24 4.13 3.40 3.18 3.91 4.13 3.88 3.74 Fair 3.00

MF9 3.76 3.76 4.01 4.26 4.26 4.55 3.56 3.34 4.07 4.29 4.04 3.76

MF10 3.38 3.64 3.64 3.89 3.89 3.78 3.05 2.83 3.30 3.78 3.52 3.63

MF11 3.79 4.04 4.04 4.29 4.29 4.18 3.45 3.23 3.71 4.18 3.93 3.54 Low 2.00

MF12 3.79 3.79 3.79 4.29 4.29 4.18 3.45 3.23 3.96 4.18 3.93 3.79

MF13 3.70 3.70 3.70 4.20 4.20 4.09 3.37 3.14 3.62 4.09 3.84 3.70

Poor 1.00

41

Appendix D, Table 5. Monthly habitat quality scores and indices for fluvial adult downstream migration habitat in thirteen reaches in

the Middle Fork John Day River.


MF1 4.37 4.37 4.37 4.57 4.37 3.83 3.83 3.30 4.03 4.23 4.23 3.97

MF2 4.46 4.46 4.46 4.66 4.46 4.09 3.83 3.56 4.03 4.49 4.69 4.06 High 5.00

MF3 4.29 4.29 4.29 4.49 4.09 3.76 3.49 3.23 3.69 4.16 4.36 3.89

MF4 3.86 4.26 4.26 3.86 4.26 3.93 3.46 3.20 3.66 4.13 4.33 3.86

MF5 3.93 4.33 4.33 3.93 4.33 4.00 3.53 3.27 3.93 4.40 4.20 3.93 Good 4.00

MF6 4.04 4.04 4.04 4.64 4.44 4.10 3.64 3.38 3.84 4.50 4.30 4.04

MF7 4.04 4.04 4.04 4.44 4.44 4.30 3.64 3.38 3.84 4.30 4.50 4.04

MF8 4.01 4.01 4.01 4.61 4.41 4.07 3.61 3.35 3.81 4.47 4.27 4.01 Fair 3.00

MF9 4.00 4.00 4.40 4.61 4.40 4.44 3.78 3.51 3.98 4.44 4.44 4.00

MF10 3.64 4.04 4.04 4.24 4.04 3.70 3.24 2.98 3.44 3.90 3.90 3.91

MF11 4.04 4.44 4.44 4.64 4.44 4.10 3.64 3.38 3.84 4.30 4.30 3.77 Low 2.00

MF12 4.04 4.04 4.04 4.64 4.44 4.10 3.64 3.38 3.84 4.50 4.30 4.04

MF13 3.99 3.99 3.99 4.39 4.39 4.05 3.59 3.33 3.79 4.25 4.25 3.99

Poor 1.00

42

Appendix D, Table 6. Monthly habitat quality scores and indices subadult downstream migration habitat in thirteen reaches in the



MF1 4.35 4.35 4.35 4.59 4.35 3.74 3.74 3.32 3.98 4.22 4.22 3.87

MF2 4.44 4.44 4.44 4.68 4.44 4.00 3.79 3.57 4.02 4.47 4.71 3.96 High 5.00

MF3 4.29 4.29 4.29 4.53 4.05 3.68 3.47 3.26 3.71 4.16 4.40 3.81

MF4 3.79 4.26 4.26 3.79 4.26 3.89 3.44 3.23 3.68 4.13 4.37 3.79

MF5 3.85 4.33 4.33 3.85 4.33 3.95 3.50 3.29 3.98 4.43 4.19 3.85 Good 4.00

MF6 3.95 3.95 3.95 4.67 4.43 4.06 3.61 3.40 3.85 4.54 4.30 3.95

MF7 3.95 3.95 3.95 4.43 4.43 4.30 3.61 3.40 3.85 4.30 4.54 3.95

MF8 3.93 3.93 3.93 4.64 4.40 4.03 3.58 3.37 3.82 4.51 4.27 3.93 Fair 3.00

MF9 3.92 3.92 4.40 4.64 4.40 4.43 3.74 3.53 3.98 4.43 4.43 3.92

MF10 3.50 3.97 3.97 4.21 3.97 3.60 3.15 2.94 3.39 3.84 3.84 3.83

MF11 3.95 4.43 4.43 4.67 4.43 4.06 3.61 3.40 3.85 4.30 4.30 3.62 Low 2.00

MF12 3.95 3.95 3.95 4.67 4.43 4.06 3.61 3.40 3.85 4.54 4.30 3.95

MF13 3.91 3.91 3.91 4.39 4.39 4.02 3.57 3.35 3.80 4.25 4.25 3.91

Poor 1.00

43

Appendix D, Table 7. Monthly habitat quality scores and indices for fluvial subadult upstream migration habitat in thirteen reaches in

the Middle Fork John Day River.


MF1 4.67 4.67 4.67 4.67 4.67 3.92 3.92 3.37 4.12 4.52 4.52 4.67

MF2 4.75 4.75 4.75 4.75 4.75 4.19 3.92 3.64 4.32 4.79 4.79 4.75 High 5.00

MF3 4.62 4.62 4.62 4.62 4.42 3.86 3.59 3.32 3.99 4.46 4.46 4.62

MF4 4.59 4.59 4.59 4.59 4.59 4.04 3.56 3.29 3.96 4.43 4.43 4.59

MF5 4.58 4.58 4.58 4.58 4.58 4.02 3.55 3.28 4.15 4.42 4.42 4.58 Good 4.00

MF6 4.67 4.67 4.67 4.67 4.67 4.32 3.64 3.37 4.04 4.52 4.52 4.67

MF7 4.67 4.67 4.67 4.67 4.67 4.52 3.64 3.37 4.04 4.52 4.52 4.67

MF8 4.67 4.67 4.67 4.67 4.67 4.52 3.64 3.37 4.04 4.52 4.52 4.67 Fair 3.00

MF9 4.63 4.63 4.63 4.63 4.63 4.67 3.80 3.53 4.20 4.67 4.67 4.63

MF10 4.26 4.26 4.26 4.26 4.26 3.90 3.23 2.96 3.43 4.10 4.10 4.55

MF11 4.67 4.67 4.67 4.67 4.67 4.32 3.64 3.37 3.84 4.52 4.52 4.38 Low 2.00

MF12 4.67 4.67 4.67 4.67 4.67 4.32 3.64 3.37 4.04 4.52 4.52 4.67

MF13 4.65 4.65 4.65 4.65 4.65 4.29 3.62 3.35 3.82 4.49 4.49 4.65

Poor 1.00

44

Appendix D, Table 8. Monthly habitat quality scores and indices for fluvial subadult rearing, foraging, and growth habitat in thirteen

reaches in the Middle Fork John Day River.


MF1 3.62 3.62 3.62 3.89 4.42 3.51 3.51 3.09 3.77 4.30 4.04 3.62

MF2 3.75 3.75 3.75 4.01 4.54 3.78 3.57 3.36 4.10 4.31 4.04 3.75 High 5.00

MF3 3.55 3.55 3.55 3.81 4.08 3.43 3.22 3.02 3.75 3.96 3.70 3.55

MF4 3.51 3.51 3.51 3.51 4.04 3.66 3.18 2.98 3.71 3.92 3.66 3.51

MF5 3.58 3.58 3.58 3.58 4.11 3.73 3.26 3.05 4.06 3.73 3.47 3.58 Good 4.00

MF6 3.73 3.73 3.73 3.99 4.26 4.15 3.41 3.20 3.94 3.88 3.61 3.73

MF7 3.73 3.73 3.73 3.73 4.26 4.41 3.41 3.20 3.94 4.15 3.88 3.73

MF8 3.69 3.69 3.69 3.95 4.22 4.10 3.37 3.16 3.90 3.84 3.57 3.69 Fair 3.00

MF9 3.70 3.70 3.70 3.97 4.23 4.53 3.52 3.31 4.05 4.26 3.73 3.70

MF10 3.31 3.31 3.31 3.57 3.84 3.72 2.98 2.77 3.25 3.72 3.19 3.59

MF11 3.73 3.73 3.73 3.99 4.26 4.15 3.41 3.20 3.67 4.15 3.61 3.44 Low 2.00

MF12 3.73 3.73 3.73 3.99 4.26 4.15 3.41 3.20 3.94 3.88 3.61 3.73

MF13 3.64 3.64 3.64 4.17 4.17 4.06 3.32 3.11 3.59 4.06 3.53 3.64

Poor 1.00

45

Appendix E, Table 1. Monthly habitat quality scores and indices for bull trout spawning habit in forty-one reaches in the John Day

River.


JD1 4.22 4.22 4.22 4.22 4.22 3.75 3.49 3.49 3.75 3.75 4.27 4.22

JD2 4.17 4.17 4.17 4.17 4.17 3.44 3.44 3.44 3.70 3.70 4.22 4.17 High 5.00

JD3 4.06 4.06 4.06 4.06 4.06 3.09 2.87 2.87 2.87 3.13 3.86 4.06

JD4 3.93 3.93 3.50 3.50 3.50 2.77 2.56 2.56 2.56 2.82 3.98 3.93

JD5 4.07 4.07 4.07 3.64 3.64 2.66 2.45 2.45 2.45 2.71 3.87 4.07 Good 4.00

JD6 4.07 4.07 3.64 3.64 3.64 2.66 2.45 2.45 2.45 2.45 3.87 4.07

JD7 3.98 3.98 3.98 3.55 3.55 2.82 2.61 2.61 2.61 2.61 4.03 3.98

JD8 4.03 4.03 3.60 3.60 3.60 2.62 2.62 2.62 2.62 2.62 3.83 4.03 Fair 3.00

JD9 3.91 3.91 3.91 3.48 3.48 2.75 2.54 2.54 2.54 2.54 3.96 3.91

JD10 4.03 4.03 3.60 3.60 3.60 2.62 2.41 2.41 2.41 2.41 3.83 4.03

JD11 3.89 3.89 3.89 3.46 3.46 2.48 2.48 2.48 2.48 2.48 3.69 3.89 Low 2.00

JD12 3.84 3.84 3.41 3.41 3.41 2.68 2.47 2.47 2.47 2.47 3.89 3.84

JD13 3.98 3.98 3.98 3.55 3.55 2.82 2.61 2.61 2.61 2.61 4.03 3.98

JD14 4.03 4.03 3.60 3.60 3.60 2.62 2.41 2.41 2.41 2.41 3.83 4.03 Poor 1.00

JD15 4.03 4.03 4.03 3.60 3.60 2.62 2.41 2.41 2.41 2.41 3.83 4.03

JD16 4.03 4.03 3.60 3.60 3.60 2.62 2.41 2.41 2.41 2.41 3.83 4.03

JD17 4.03 4.03 4.03 3.60 3.60 2.62 2.41 2.41 2.41 2.41 3.83 4.03

JD18 4.03 4.03 3.60 3.60 3.60 2.62 2.41 2.41 2.41 2.41 3.83 4.03

JD19 3.93 3.93 3.93 3.50 3.50 2.77 2.56 2.56 2.56 2.56 3.98 3.93

JD20 4.03 4.03 3.59 3.59 3.59 2.62 2.40 2.40 2.40 2.40 3.83 4.03

JD21 3.99 3.99 3.99 3.56 3.56 2.58 2.37 2.37 2.37 2.37 3.79 3.99

JD22 3.89 3.89 3.45 3.45 3.45 2.48 2.26 2.26 2.26 2.26 3.69 3.89

JD23 3.99 3.99 3.99 3.56 3.56 2.58 2.37 2.37 2.37 2.37 3.79 3.99

JD24 3.99 3.99 3.56 3.56 3.56 2.58 2.37 2.37 2.37 2.37 3.79 3.99

JD25 4.03 4.03 4.03 3.59 3.59 2.62 2.40 2.40 2.40 2.40 3.83 4.03

46

JD26 3.93 3.93 3.50 3.50 3.50 2.77 2.55 2.55 2.55 2.55 3.98 3.93

JD27 4.03 4.03 4.03 3.59 3.59 2.62 2.40 2.40 2.40 2.40 3.83 4.03

JD28 3.99 3.99 3.56 3.56 3.56 2.58 2.37 2.37 2.37 2.37 3.79 3.99

JD29 3.98 3.98 3.98 3.54 3.54 2.82 2.60 2.60 2.60 2.60 4.03 3.98

JD30 4.03 4.03 3.59 3.59 3.59 2.62 2.40 2.40 2.40 2.40 3.83 4.03

JD31 3.99 3.99 3.99 3.56 3.56 2.58 2.37 2.37 2.37 2.37 3.79 3.99

JD32 4.03 4.03 3.59 3.59 3.59 2.62 2.62 2.62 2.62 2.62 3.83 4.03

JD33 3.99 3.99 3.99 3.56 3.56 2.58 2.37 2.37 2.37 2.37 3.79 3.99

JD34 4.03 4.03 3.59 3.59 3.59 2.62 2.40 2.40 2.40 2.40 3.83 4.03

JD35 3.99 3.99 3.99 3.56 3.56 2.58 2.37 2.37 2.37 2.37 3.79 3.99

JD36 3.99 3.99 3.56 3.56 3.56 2.58 2.37 2.37 2.37 2.37 3.79 3.99

JD37 3.99 3.99 3.99 3.56 3.56 2.58 2.58 2.58 2.58 2.58 3.79 3.99

JD38 3.73 3.73 3.30 3.30 3.30 2.32 2.32 2.32 2.32 2.32 3.53 3.73

JD39 4.03 4.03 4.03 3.59 3.59 2.62 2.62 2.62 2.62 2.62 3.83 4.03

JD40 3.93 3.93 3.49 3.49 3.49 2.41 2.41 2.41 3.19 3.19 3.73 3.93

JD41 4.03 4.03 4.03 3.59 3.59 2.62 2.62 2.62 3.40 3.40 3.83 4.03

47

Appendix E, Table 2. Monthly habitat quality scores and indices for juvenile rearing, foraging and growth habitat in forty-one reaches

in the John Day River.


JD1 4.19 4.19 4.19 4.19 4.19 4.23 3.94 3.94 4.23 4.52 4.23 4.19

JD2 4.15 4.15 4.15 4.15 4.15 3.90 3.90 3.90 4.19 4.48 4.19 4.15 High 5.00

JD3 3.97 3.97 3.97 3.97 3.97 3.24 3.14 3.14 3.43 3.72 3.81 3.97

JD4 3.86 3.86 3.43 3.43 3.43 2.89 2.79 2.79 2.50 3.37 3.90 3.86

JD5 3.99 3.99 3.99 3.56 3.56 2.82 2.73 2.44 2.73 3.30 3.83 3.99 Good 4.00

JD6 3.99 3.99 3.56 3.56 3.56 2.53 2.44 2.44 2.73 3.02 3.83 3.99

JD7 3.90 3.90 3.90 3.47 3.47 2.64 2.54 2.54 2.54 2.83 3.94 3.90

JD8 3.94 3.94 3.51 3.51 3.51 2.48 2.48 2.48 2.48 2.77 3.78 3.94 Fair 3.00

JD9 3.91 3.91 3.91 3.48 3.48 2.66 2.56 2.56 2.56 2.85 3.95 3.91

JD10 3.94 3.94 3.51 3.51 3.51 2.48 2.38 2.38 2.38 2.67 3.78 3.94

JD11 3.72 3.72 3.72 3.29 3.29 2.26 2.26 2.26 2.26 2.55 3.56 3.72 Low 2.00

JD12 3.68 3.68 3.25 3.25 3.25 2.42 2.33 2.33 2.33 2.62 3.72 3.68

JD13 3.90 3.90 3.90 3.47 3.47 2.64 2.54 2.54 2.54 2.83 3.94 3.90

JD14 3.94 3.94 3.51 3.51 3.51 2.48 2.38 2.38 2.38 2.67 3.78 3.94 Poor 1.00

JD15 3.94 3.94 3.94 3.51 3.51 2.48 2.38 2.38 2.38 2.67 3.78 3.94

JD16 3.94 3.94 3.51 3.51 3.51 2.48 2.38 2.38 2.38 2.67 3.78 3.94

JD17 3.94 3.94 3.94 3.51 3.51 2.48 2.38 2.38 2.38 2.67 3.78 3.94

JD18 3.94 3.94 3.51 3.51 3.51 2.48 2.38 2.38 2.38 2.67 3.78 3.94

JD19 3.86 3.86 3.86 3.43 3.43 2.60 2.50 2.50 2.50 2.79 3.90 3.86

JD20 3.95 3.95 3.52 3.52 3.52 2.49 2.39 2.39 2.39 2.68 3.79 3.95

JD21 3.89 3.89 3.89 3.47 3.47 2.44 2.34 2.34 2.34 2.63 3.73 3.89

JD22 3.83 3.83 3.41 3.41 3.41 2.38 2.28 2.28 2.28 2.57 3.67 3.83

JD23 3.89 3.89 3.89 3.47 3.47 2.44 2.34 2.34 2.34 2.63 3.73 3.89

JD24 3.89 3.89 3.47 3.47 3.47 2.44 2.34 2.34 2.34 2.63 3.73 3.89

JD25 3.95 3.95 3.95 3.52 3.52 2.49 2.39 2.39 2.39 2.68 3.79 3.95

48

JD26 3.87 3.87 3.44 3.44 3.44 2.61 2.52 2.52 2.52 2.80 3.91 3.87

JD27 3.95 3.95 3.95 3.52 3.52 2.49 2.39 2.39 2.39 2.68 3.79 3.95

JD28 3.89 3.89 3.47 3.47 3.47 2.44 2.34 2.34 2.34 2.63 3.73 3.89

JD29 3.91 3.91 3.91 3.48 3.48 2.65 2.56 2.56 2.56 2.84 3.95 3.91

JD30 3.95 3.95 3.52 3.52 3.52 2.49 2.39 2.39 2.39 2.68 3.79 3.95

JD31 3.89 3.89 3.89 3.47 3.47 2.44 2.34 2.34 2.34 2.63 3.73 3.89

JD32 3.95 3.95 3.52 3.52 3.52 2.49 2.49 2.49 2.49 2.78 3.79 3.95

JD33 3.89 3.89 3.89 3.47 3.47 2.44 2.34 2.34 2.34 2.63 3.73 3.89

JD34 3.95 3.95 3.52 3.52 3.52 2.49 2.39 2.39 2.39 2.68 3.79 3.95

JD35 3.89 3.89 3.89 3.47 3.47 2.44 2.34 2.34 2.34 2.63 3.73 3.89

JD36 3.89 3.89 3.47 3.47 3.47 2.44 2.34 2.34 2.34 2.63 3.73 3.89

JD37 3.89 3.89 3.89 3.47 3.47 2.44 2.44 2.44 2.44 2.73 3.73 3.89

JD38 3.62 3.62 3.19 3.19 3.19 2.16 2.16 2.16 2.16 2.16 3.46 3.62

JD39 3.95 3.95 3.95 3.52 3.52 2.49 2.49 2.49 2.49 2.49 3.79 3.95

JD40 3.95 3.95 3.52 3.52 3.52 2.44 3.02 2.44 2.73 2.73 3.79 3.95

JD41 3.95 3.95 3.95 3.52 3.52 2.49 3.07 2.49 2.78 2.78 3.79 3.95

49

Appendix E, Table 3. Monthly habitat quality scores and indices for fluvial adult upstream migration habitat in forty-one reaches in

the John Day River.


JD1 4.44 4.44 4.44 4.44 4.44 4.66 4.30 4.30 4.66 4.13 4.48 4.44

JD2 4.41 4.41 4.41 4.41 4.41 4.28 4.28 4.28 4.63 4.10 4.45 4.41 High 5.00

JD3 4.42 4.42 4.42 4.42 4.42 4.07 3.69 3.52 3.69 3.87 4.25 4.42

JD4 4.22 4.22 3.67 3.67 3.67 3.53 3.15 2.98 2.80 3.33 4.26 4.22

JD5 4.33 4.33 4.33 3.78 3.78 3.26 2.88 2.88 3.06 3.41 4.17 4.33 Good 4.00

JD6 4.33 4.33 3.78 3.78 3.78 3.26 2.88 2.88 2.88 3.06 4.17 4.33

JD7 4.26 4.26 4.26 3.71 3.71 3.40 3.02 3.02 3.02 3.20 4.30 4.26

JD8 4.30 4.30 3.75 3.75 3.75 3.23 3.23 3.23 3.23 3.41 4.14 4.30 Fair 3.00

JD9 4.18 4.18 4.18 3.62 3.62 3.31 2.93 2.93 2.93 3.11 4.22 4.18

JD10 4.30 4.30 3.75 3.75 3.75 3.23 2.85 2.67 2.85 3.03 4.14 4.30

JD11 4.11 4.11 4.11 3.56 3.56 3.03 3.03 2.86 3.03 3.21 3.94 4.11 Low 2.00

JD12 4.07 4.07 3.51 3.51 3.51 3.20 2.82 2.65 2.82 3.00 4.11 4.07

JD13 4.26 4.26 4.26 3.71 3.71 3.40 3.02 2.84 3.02 3.20 4.30 4.26

JD14 4.30 4.30 3.75 3.75 3.75 3.23 2.85 2.67 2.85 3.03 4.14 4.30 Poor 1.00

JD15 4.30 4.30 4.30 3.75 3.75 3.23 2.85 2.67 2.85 3.03 4.14 4.30

JD16 4.30 4.30 3.75 3.75 3.75 3.23 2.85 2.67 2.85 3.03 4.14 4.30

JD17 4.30 4.30 4.30 3.75 3.75 3.23 2.85 2.67 2.85 3.03 4.14 4.30

JD18 4.30 4.30 3.75 3.75 3.75 3.23 2.85 2.67 2.85 3.03 4.14 4.30

JD19 4.22 4.22 4.22 3.67 3.67 3.36 2.98 2.80 2.98 3.15 4.26 4.22

JD20 4.31 4.31 3.75 3.75 3.75 3.23 2.68 2.68 2.85 3.03 4.14 4.31

JD21 4.28 4.28 4.28 3.72 3.72 3.20 2.82 2.65 2.82 3.00 4.11 4.28

JD22 4.23 4.23 3.67 3.67 3.67 3.15 2.60 2.60 2.77 2.95 4.06 4.23

JD23 4.28 4.28 4.28 3.72 3.72 3.20 2.65 2.65 2.82 2.82 4.11 4.28

JD24 4.28 4.28 3.72 3.72 3.72 3.20 2.65 2.65 2.82 2.82 4.11 4.28

JD25 4.31 4.31 4.31 3.75 3.75 3.06 2.68 2.68 2.85 2.85 4.14 4.31

50

JD26 4.22 4.22 3.67 3.67 3.67 3.18 2.80 2.80 2.98 2.98 4.26 4.22

JD27 4.31 4.31 4.31 3.75 3.75 3.06 2.68 2.68 2.85 2.85 4.14 4.31

JD28 4.28 4.28 3.72 3.72 3.72 3.03 2.65 2.65 2.82 2.82 4.11 4.28

JD29 4.26 4.26 4.26 3.71 3.71 3.22 2.84 2.84 3.02 3.02 4.31 4.26

JD30 4.31 4.31 3.75 3.75 3.75 3.06 2.68 2.68 2.85 2.85 4.14 4.31

JD31 4.28 4.28 4.28 3.72 3.72 3.03 2.65 2.65 2.82 2.82 4.11 4.28

JD32 4.31 4.31 3.75 3.75 3.75 3.06 3.06 3.06 3.23 3.23 4.14 4.31

JD33 4.28 4.28 4.28 3.72 3.72 3.03 2.65 2.65 2.82 2.82 4.11 4.28

JD34 4.31 4.31 3.75 3.75 3.75 3.06 2.68 2.68 2.85 2.85 4.14 4.31

JD35 4.28 4.28 4.28 3.72 3.72 3.03 2.65 2.65 2.82 2.82 4.11 4.28

JD36 4.28 4.28 3.72 3.72 3.72 3.03 2.65 2.65 2.82 2.82 4.11 4.28

JD37 4.28 4.28 4.28 3.72 3.72 3.03 3.03 3.03 3.20 3.20 4.11 4.28

JD38 4.19 4.19 3.64 3.64 3.64 2.94 2.94 2.94 2.94 3.12 4.03 4.19

JD39 4.31 4.31 4.31 3.75 3.75 3.06 3.06 3.06 3.06 3.23 4.14 4.31

JD40 4.31 4.31 3.75 3.75 3.75 2.87 2.87 2.87 2.87 2.87 4.14 4.31

JD41 4.31 4.31 4.31 3.75 3.75 3.06 3.06 3.06 3.06 3.06 4.14 4.31

51

Appendix E, Table 4. Monthly habitat quality scores and indices for adult foraging and maintenance habitat in forty-one reaches in

the John Day River.


JD1 4.23 4.23 4.23 4.23 4.23 4.51 4.26 4.26 4.51 4.26 4.26 4.23

JD2 4.21 4.21 4.21 4.21 4.21 4.23 4.23 4.23 4.49 4.23 4.23 4.21 High 5.00

JD3 4.07 4.07 4.07 4.07 4.07 3.71 3.55 3.30 3.80 3.80 3.96 4.07

JD4 3.94 3.94 3.49 3.49 3.49 3.27 3.11 2.86 2.60 3.36 3.96 3.94

JD5 4.04 4.04 4.04 3.60 3.60 2.98 2.82 2.82 3.08 3.58 3.93 4.04 Good 4.00

JD6 4.04 4.04 3.60 3.60 3.60 2.98 2.82 2.82 2.82 3.33 3.93 4.04

JD7 3.96 3.96 3.96 3.52 3.52 3.04 2.88 2.88 2.88 3.14 3.99 3.96

JD8 3.99 3.99 3.55 3.55 3.55 2.93 2.93 2.93 2.93 3.19 3.88 3.99 Fair 3.00

JD9 4.00 4.00 4.00 3.55 3.55 3.08 2.92 2.92 2.92 3.17 4.02 4.00

JD10 3.99 3.99 3.55 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD11 3.74 3.74 3.74 3.30 3.30 2.68 2.68 2.43 2.68 2.94 3.63 3.74 Low 2.00

JD12 3.71 3.71 3.27 3.27 3.27 2.79 2.63 2.38 2.63 2.89 3.74 3.71

JD13 3.96 3.96 3.96 3.52 3.52 3.04 2.88 2.63 2.88 3.14 3.99 3.96

JD14 3.99 3.99 3.55 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99 Poor 1.00

JD15 3.99 3.99 3.99 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD16 3.99 3.99 3.55 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD17 3.99 3.99 3.99 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD18 3.99 3.99 3.55 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD19 3.94 3.94 3.94 3.49 3.49 3.02 2.86 2.60 2.86 3.11 3.96 3.94

JD20 4.01 4.01 3.57 3.57 3.57 2.95 2.54 2.54 2.79 3.05 3.90 4.01

JD21 3.96 3.96 3.96 3.52 3.52 2.91 2.75 2.49 2.75 3.00 3.85 3.96

JD22 3.91 3.91 3.47 3.47 3.47 2.85 2.44 2.44 2.69 2.94 3.80 3.91

JD23 3.96 3.96 3.96 3.52 3.52 2.91 2.49 2.49 2.75 2.75 3.85 3.96

JD24 3.96 3.96 3.52 3.52 3.52 2.91 2.49 2.49 2.75 2.75 3.85 3.96

JD25 4.01 4.01 4.01 3.57 3.57 2.70 2.54 2.54 2.79 2.79 3.90 4.01

52

JD26 3.96 3.96 3.52 3.52 3.52 2.78 2.63 2.63 2.88 2.88 3.99 3.96

JD27 4.01 4.01 4.01 3.57 3.57 2.70 2.54 2.54 2.79 2.79 3.90 4.01

JD28 3.96 3.96 3.52 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD29 3.99 3.99 3.99 3.54 3.54 2.81 2.65 2.65 2.91 2.91 4.01 3.99

JD30 4.01 4.01 3.57 3.57 3.57 2.70 2.54 2.54 2.79 2.79 3.90 4.01

JD31 3.96 3.96 3.96 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD32 4.01 4.01 3.57 3.57 3.57 2.70 2.70 2.70 2.95 2.95 3.90 4.01

JD33 3.96 3.96 3.96 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD34 4.01 4.01 3.57 3.57 3.57 2.70 2.54 2.54 2.79 2.79 3.90 4.01

JD35 3.96 3.96 3.96 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD36 3.96 3.96 3.52 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD37 3.96 3.96 3.96 3.52 3.52 2.65 2.65 2.65 2.91 2.91 3.85 3.96

JD38 3.74 3.74 3.29 3.29 3.29 2.42 2.42 2.42 2.42 2.68 3.63 3.74

JD39 4.01 4.01 4.01 3.57 3.57 2.70 2.70 2.70 2.70 2.95 3.90 4.01

JD40 4.01 4.01 3.57 3.57 3.57 2.62 2.62 2.62 2.87 2.87 3.90 4.01

JD41 4.01 4.01 4.01 3.57 3.57 2.70 2.70 2.70 2.95 2.95 3.90 4.01

53

Appendix E, Table 5. Monthly habitat quality scores and indices for fluvial adult downstream migration habitat in forty-one reaches



JD1 4.40 4.40 4.40 4.40 4.40 4.43 4.23 4.23 4.43 4.43 4.43 4.40

JD2 4.36 4.21 4.21 4.21 4.21 4.23 4.23 4.23 4.49 4.23 4.23 4.21 High 5.00

JD3 4.30 4.07 4.07 4.07 4.07 3.71 3.55 3.30 3.80 3.80 3.96 4.07

JD4 4.14 3.94 3.49 3.49 3.49 3.27 3.11 2.86 2.60 3.36 3.96 3.94

JD5 4.24 4.04 4.04 3.60 3.60 2.98 2.82 2.82 3.08 3.58 3.93 4.04 Good 4.00

JD6 4.24 4.04 3.60 3.60 3.60 2.98 2.82 2.82 2.82 3.33 3.93 4.04

JD7 4.18 3.96 3.96 3.52 3.52 3.04 2.88 2.88 2.88 3.14 3.99 3.96

JD8 4.21 3.99 3.55 3.55 3.55 2.93 2.93 2.93 2.93 3.19 3.88 3.99 Fair 3.00

JD9 4.13 4.00 4.00 3.55 3.55 3.08 2.92 2.92 2.92 3.17 4.02 4.00

JD10 4.21 3.99 3.55 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD11 4.02 3.74 3.74 3.30 3.30 2.68 2.68 2.43 2.68 2.94 3.63 3.74 Low 2.00

JD12 3.98 3.71 3.27 3.27 3.27 2.79 2.63 2.38 2.63 2.89 3.74 3.71

JD13 4.18 3.96 3.96 3.52 3.52 3.04 2.88 2.63 2.88 3.14 3.99 3.96

JD14 4.21 3.99 3.55 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99 Poor 1.00

JD15 4.21 3.99 3.99 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD16 4.21 3.99 3.55 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD17 4.21 3.99 3.99 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD18 4.21 3.99 3.55 3.55 3.55 2.93 2.77 2.52 2.77 3.03 3.88 3.99

JD19 4.14 3.94 3.94 3.49 3.49 3.02 2.86 2.60 2.86 3.11 3.96 3.94

JD20 4.20 4.01 3.57 3.57 3.57 2.95 2.54 2.54 2.79 3.05 3.90 4.01

JD21 4.17 3.96 3.96 3.52 3.52 2.91 2.75 2.49 2.75 3.00 3.85 3.96

JD22 4.11 3.91 3.47 3.47 3.47 2.85 2.44 2.44 2.69 2.94 3.80 3.91

JD23 4.17 3.96 3.96 3.52 3.52 2.91 2.49 2.49 2.75 2.75 3.85 3.96

JD24 4.17 3.96 3.52 3.52 3.52 2.91 2.49 2.49 2.75 2.75 3.85 3.96

JD25 4.20 4.01 4.01 3.57 3.57 2.70 2.54 2.54 2.79 2.79 3.90 4.01

54

JD26 4.13 3.96 3.52 3.52 3.52 2.78 2.63 2.63 2.88 2.88 3.99 3.96

JD27 4.20 4.01 4.01 3.57 3.57 2.70 2.54 2.54 2.79 2.79 3.90 4.01

JD28 4.17 3.96 3.52 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD29 4.17 3.99 3.99 3.54 3.54 2.81 2.65 2.65 2.91 2.91 4.01 3.99

JD30 4.20 4.01 3.57 3.57 3.57 2.70 2.54 2.54 2.79 2.79 3.90 4.01

JD31 4.17 3.96 3.96 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD32 4.20 4.01 3.57 3.57 3.57 2.70 2.70 2.70 2.95 2.95 3.90 4.01

JD33 4.17 3.96 3.96 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD34 4.20 4.01 3.57 3.57 3.57 2.70 2.54 2.54 2.79 2.79 3.90 4.01

JD35 4.17 3.96 3.96 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD36 4.17 3.96 3.52 3.52 3.52 2.65 2.49 2.49 2.75 2.75 3.85 3.96

JD37 4.17 3.96 3.96 3.52 3.52 2.65 2.65 2.65 2.91 2.91 3.85 3.96

JD38 4.06 3.74 3.29 3.29 3.29 2.42 2.42 2.42 2.42 2.68 3.63 3.74

JD39 4.20 4.01 4.01 3.57 3.57 2.70 2.70 2.70 2.70 2.95 3.90 4.01

JD40 4.20 4.01 3.57 3.57 3.57 2.62 2.62 2.62 2.87 2.87 3.90 4.01

JD41 4.20 4.01 4.01 3.57 3.57 2.70 2.70 2.70 2.95 2.95 3.90 4.01

55

Appendix E, Table 6. Monthly habitat quality scores and indices subadult downstream migration habitat in forty-one reaches in the

John Day River.


JD1 4.38 4.38 4.38 4.38 4.38 4.41 4.17 4.17 4.41 4.41 4.41 4.38

JD2 4.35 4.35 4.35 4.35 4.35 4.14 4.14 4.14 4.38 4.38 4.38 4.35 High 5.00

JD3 4.30 4.30 4.30 4.30 4.30 3.93 3.58 3.34 3.58 3.82 4.17 4.30

JD4 4.12 4.12 3.70 3.70 3.70 3.49 3.15 2.91 2.67 3.38 4.15 4.12

JD5 4.21 4.21 4.21 3.79 3.79 3.18 2.84 2.84 3.07 3.31 4.08 4.21 Good 4.00

JD6 4.21 4.21 3.79 3.79 3.79 3.18 2.84 2.84 2.84 3.07 4.08 4.21

JD7 4.15 4.15 4.15 3.73 3.73 3.29 2.94 2.94 2.94 3.18 4.19 4.15

JD8 4.19 4.19 3.76 3.76 3.76 3.15 3.15 3.15 3.15 3.39 4.05 4.19 Fair 3.00

JD9 4.11 4.11 4.11 3.69 3.69 3.25 2.90 2.90 2.90 3.14 4.15 4.11

JD10 4.19 4.19 3.76 3.76 3.76 3.15 2.81 2.57 2.81 3.05 4.05 4.19

JD11 3.97 3.97 3.97 3.54 3.54 2.94 2.94 2.70 2.94 3.17 3.84 3.97 Low 2.00

JD12 3.93 3.93 3.51 3.51 3.51 3.07 2.72 2.48 2.72 2.96 3.97 3.93

JD13 4.15 4.15 4.15 3.73 3.73 3.29 2.94 2.70 2.94 3.18 4.19 4.15

JD14 4.19 4.19 3.76 3.76 3.76 3.15 2.81 2.57 2.81 3.05 4.05 4.19 Poor 1.00

JD15 4.19 4.19 4.19 3.76 3.76 3.15 2.81 2.57 2.81 3.05 4.05 4.19

JD16 4.19 4.19 3.76 3.76 3.76 3.15 2.81 2.57 2.81 3.05 4.05 4.19

JD17 4.19 4.19 4.19 3.76 3.76 3.15 2.81 2.57 2.81 3.05 4.05 4.19

JD18 4.19 4.19 3.76 3.76 3.76 3.15 2.81 2.57 2.81 3.05 4.05 4.19

JD19 4.12 4.12 4.12 3.70 3.70 3.25 2.91 2.67 2.91 3.15 4.15 4.12

JD20 4.18 4.18 3.76 3.76 3.76 3.15 2.57 2.57 2.80 3.04 4.05 4.18

JD21 4.15 4.15 4.15 3.73 3.73 3.12 2.78 2.54 2.78 3.02 4.02 4.15

JD22 4.10 4.10 3.68 3.68 3.68 3.07 2.49 2.49 2.73 2.96 3.97 4.10

JD23 4.15 4.15 4.15 3.73 3.73 3.12 2.54 2.54 2.78 2.78 4.02 4.15

JD24 4.15 4.15 3.73 3.73 3.73 3.12 2.54 2.54 2.78 2.78 4.02 4.15

JD25 4.18 4.18 4.18 3.76 3.76 2.91 2.57 2.57 2.80 2.80 4.05 4.18

56

JD26 4.12 4.12 3.69 3.69 3.69 3.01 2.66 2.66 2.90 2.90 4.15 4.12

JD27 4.18 4.18 4.18 3.76 3.76 2.91 2.57 2.57 2.80 2.80 4.05 4.18

JD28 4.15 4.15 3.73 3.73 3.73 2.88 2.54 2.54 2.78 2.78 4.02 4.15

JD29 4.15 4.15 4.15 3.73 3.73 3.04 2.70 2.70 2.94 2.94 4.18 4.15

JD30 4.18 4.18 3.76 3.76 3.76 2.91 2.57 2.57 2.80 2.80 4.05 4.18

JD31 4.15 4.15 4.15 3.73 3.73 2.88 2.54 2.54 2.78 2.78 4.02 4.15

JD32 4.18 4.18 3.76 3.76 3.76 2.91 2.91 2.91 3.15 3.15 4.05 4.18

JD33 4.15 4.15 4.15 3.73 3.73 2.88 2.54 2.54 2.78 2.78 4.02 4.15

JD34 4.18 4.18 3.76 3.76 3.76 2.91 2.57 2.57 2.80 2.80 4.05 4.18

JD35 4.15 4.15 4.15 3.73 3.73 2.88 2.54 2.54 2.78 2.78 4.02 4.15

JD36 4.15 4.15 3.73 3.73 3.73 2.88 2.54 2.54 2.78 2.78 4.02 4.15

JD37 4.15 4.15 4.15 3.73 3.73 2.88 2.88 2.88 3.12 3.12 4.02 4.15

JD38 4.04 4.04 3.61 3.61 3.61 2.77 2.77 2.77 2.77 3.00 3.90 4.04

JD39 4.18 4.18 4.18 3.76 3.76 2.91 2.91 2.91 2.91 3.15 4.05 4.18

JD40 4.18 4.18 3.76 3.76 3.76 2.74 2.74 2.74 2.98 2.98 4.05 4.18

JD41 4.18 4.18 4.18 3.76 3.76 2.91 2.91 2.91 3.15 3.15 4.05 4.18

57

Appendix E, Table 7. Monthly habitat quality scores and indices for fluvial subadult upstream migration habitat in forty-one reaches



JD1 4.47 4.47 4.47 4.47 4.47 4.71 4.51 4.51 4.71 4.71 4.51 4.47

JD2 4.44 4.44 4.44 4.44 4.44 4.48 4.48 4.48 4.68 4.68 4.48 4.44 High 5.00

JD3 4.35 4.35 4.35 4.35 4.35 4.00 3.66 3.46 3.86 4.06 4.20 4.35

JD4 4.18 3.92 3.50 3.50 3.50 3.27 3.12 2.86 2.59 3.39 3.95 3.92

JD5 4.28 4.02 4.02 3.60 3.60 2.96 2.81 2.81 3.08 3.61 3.90 4.02 Good 4.00

JD6 4.28 4.02 3.60 3.60 3.60 2.96 2.81 2.81 2.81 3.34 3.90 4.02

JD7 4.22 3.95 3.95 3.53 3.53 3.03 2.89 2.89 2.89 3.15 3.98 3.95

JD8 4.26 3.98 3.56 3.56 3.56 2.92 2.92 2.92 2.92 3.18 3.86 3.98 Fair 3.00

JD9 4.14 3.96 3.96 3.54 3.54 3.04 2.90 2.90 2.90 3.16 3.99 3.96

JD10 4.26 3.98 3.56 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD11 4.07 3.74 3.74 3.32 3.32 2.68 2.68 2.41 2.68 2.94 3.62 3.74 Low 2.00

JD12 4.03 3.71 3.29 3.29 3.29 2.79 2.65 2.38 2.65 2.91 3.74 3.71

JD13 4.22 3.95 3.95 3.53 3.53 3.03 2.89 2.62 2.89 3.15 3.98 3.95

JD14 4.26 3.98 3.56 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98 Poor 1.00

JD15 4.26 3.98 3.98 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD16 4.26 3.98 3.56 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD17 4.26 3.98 3.98 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD18 4.26 3.98 3.56 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD19 4.18 3.92 3.92 3.50 3.50 3.00 2.86 2.59 2.86 3.12 3.95 3.92

JD20 4.26 3.98 3.57 3.57 3.57 2.92 2.51 2.51 2.78 3.04 3.87 3.98

JD21 4.23 3.94 3.94 3.53 3.53 2.88 2.74 2.47 2.74 3.00 3.83 3.94

JD22 4.17 3.89 3.47 3.47 3.47 2.82 2.42 2.42 2.68 2.95 3.77 3.89

JD23 4.23 3.94 3.94 3.53 3.53 2.88 2.47 2.47 2.74 2.74 3.83 3.94

JD24 4.23 3.94 3.53 3.53 3.53 2.88 2.47 2.47 2.74 2.74 3.83 3.94

JD25 4.26 3.98 3.98 3.57 3.57 2.66 2.51 2.51 2.78 2.78 3.87 3.98

58

JD26 4.18 3.92 3.51 3.51 3.51 2.74 2.60 2.60 2.86 2.86 3.95 3.92

JD27 4.26 3.98 3.98 3.57 3.57 2.66 2.51 2.51 2.78 2.78 3.87 3.98

JD28 4.23 3.94 3.53 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD29 4.22 3.95 3.95 3.54 3.54 2.77 2.63 2.63 2.89 2.89 3.98 3.95

JD30 4.26 3.98 3.57 3.57 3.57 2.66 2.51 2.51 2.78 2.78 3.87 3.98

JD31 4.23 3.94 3.94 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD32 4.26 3.98 3.57 3.57 3.57 2.66 2.66 2.66 2.92 2.92 3.87 3.98

JD33 4.23 3.94 3.94 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD34 4.26 3.98 3.57 3.57 3.57 2.66 2.51 2.51 2.78 2.78 3.87 3.98

JD35 4.23 3.94 3.94 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD36 4.23 3.94 3.53 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD37 4.23 3.94 3.94 3.53 3.53 2.61 2.61 2.61 2.88 2.88 3.83 3.94

JD38 4.14 3.75 3.33 3.33 3.33 2.42 2.42 2.42 2.42 2.69 3.63 3.75

JD39 4.26 3.98 3.98 3.57 3.57 2.66 2.66 2.66 2.66 2.92 3.87 3.98

JD40 4.26 3.98 3.57 3.57 3.57 2.58 2.58 2.58 2.85 2.85 3.87 3.98

JD41 4.26 3.98 3.98 3.57 3.57 2.66 2.66 2.66 2.92 2.92 3.87 3.98

59

Appendix E, Table 8. Monthly habitat quality scores and indices for fluvial subadult rearing, foraging, and growth habitat in forty-one

reaches in the John Day River.


JD1 4.22 4.22 4.22 4.22 4.22 4.51 4.25 4.25 4.51 4.25 4.25 4.22

JD2 4.18 4.18 4.18 4.18 4.18 4.21 4.21 4.21 4.47 4.21 4.21 4.18 High 5.00

JD3 4.07 4.07 4.07 4.07 4.07 3.69 3.55 3.29 3.82 3.82 3.96 4.07

JD4 3.92 3.92 3.50 3.50 3.50 3.27 3.12 2.86 2.59 3.39 3.95 3.92

JD5 4.02 4.02 4.02 3.60 3.60 2.96 2.81 2.81 3.08 3.61 3.90 4.02 Good 4.00

JD6 4.02 4.02 3.60 3.60 3.60 2.96 2.81 2.81 2.81 3.34 3.90 4.02

JD7 3.95 3.95 3.95 3.53 3.53 3.03 2.89 2.89 2.89 3.15 3.98 3.95

JD8 3.98 3.98 3.56 3.56 3.56 2.92 2.92 2.92 2.92 3.18 3.86 3.98 Fair 3.00

JD9 3.96 3.96 3.96 3.54 3.54 3.04 2.90 2.90 2.90 3.16 3.99 3.96

JD10 3.98 3.98 3.56 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD11 3.74 3.74 3.74 3.32 3.32 2.68 2.68 2.41 2.68 2.94 3.62 3.74 Low 2.00

JD12 3.71 3.71 3.29 3.29 3.29 2.79 2.65 2.38 2.65 2.91 3.74 3.71

JD13 3.95 3.95 3.95 3.53 3.53 3.03 2.89 2.62 2.89 3.15 3.98 3.95

JD14 3.98 3.98 3.56 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98 Poor 1.00

JD15 3.98 3.98 3.98 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD16 3.98 3.98 3.56 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD17 3.98 3.98 3.98 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD18 3.98 3.98 3.56 3.56 3.56 2.92 2.77 2.51 2.77 3.04 3.86 3.98

JD19 3.92 3.92 3.92 3.50 3.50 3.00 2.86 2.59 2.86 3.12 3.95 3.92

JD20 3.98 3.98 3.57 3.57 3.57 2.92 2.51 2.51 2.78 3.04 3.87 3.98

JD21 3.94 3.94 3.94 3.53 3.53 2.88 2.74 2.47 2.74 3.00 3.83 3.94

JD22 3.89 3.89 3.47 3.47 3.47 2.82 2.42 2.42 2.68 2.95 3.77 3.89

JD23 3.94 3.94 3.94 3.53 3.53 2.88 2.47 2.47 2.74 2.74 3.83 3.94

JD24 3.94 3.94 3.53 3.53 3.53 2.88 2.47 2.47 2.74 2.74 3.83 3.94

JD25 3.98 3.98 3.98 3.57 3.57 2.66 2.51 2.51 2.78 2.78 3.87 3.98

60

JD26 3.92 3.92 3.51 3.51 3.51 2.74 2.60 2.60 2.86 2.86 3.95 3.92

JD27 3.98 3.98 3.98 3.57 3.57 2.66 2.51 2.51 2.78 2.78 3.87 3.98

JD28 3.94 3.94 3.53 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD29 3.95 3.95 3.95 3.54 3.54 2.77 2.63 2.63 2.89 2.89 3.98 3.95

JD30 3.98 3.98 3.57 3.57 3.57 2.66 2.51 2.51 2.78 2.78 3.87 3.98

JD31 3.94 3.94 3.94 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD32 3.98 3.98 3.57 3.57 3.57 2.66 2.66 2.66 2.92 2.92 3.87 3.98

JD33 3.94 3.94 3.94 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD34 3.98 3.98 3.57 3.57 3.57 2.66 2.51 2.51 2.78 2.78 3.87 3.98

JD35 3.94 3.94 3.94 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD36 3.94 3.94 3.53 3.53 3.53 2.61 2.47 2.47 2.74 2.74 3.83 3.94

JD37 3.94 3.94 3.94 3.53 3.53 2.61 2.61 2.61 2.88 2.88 3.83 3.94

JD38 3.75 3.75 3.33 3.33 3.33 2.42 2.42 2.42 2.42 2.69 3.63 3.75

JD39 3.98 3.98 3.98 3.57 3.57 2.66 2.66 2.66 2.66 2.92 3.87 3.98

JD40 3.98 3.98 3.57 3.57 3.57 2.58 2.58 2.58 2.85 2.85 3.87 3.98

JD41 3.98 3.98 3.98 3.57 3.57 2.66 2.66 2.66 2.92 2.92 3.87 3.98

61

U.S. Fish and Wildlife Service Columbia River Fisheries Program Office 1211 SE Cardinal Court, Suite 100 Vancouver, WA 98683

2016 www.fws/columbiariver

distribution, abundance, and life history of bull trout ... day final 2.pdf · the john day river...

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